Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold152
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2945013
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 2 of 18
Found at i:191604 original size:86 final size:88
Alignment explanation
Indices: 191506--191712 Score: 199
Period size: 86 Copynumber: 2.4 Consensus size: 88
191496 AGTTGTGTCA
* * * *
191506 TTTCACGCACATTCGTAGTTTT-GATAACATTCGCATTTGCATCGTTTCAT-GTGCATTT-TC-T
1 TTTCACGCACATTCGCA-TTTTAGATAACATTCGCATTTGCATCATTTCATAG-GCATTTGCCAC
* *
191567 TTTTTTAATCCTTGCATTTGCATCG
64 TTTATGAATCCTTGCATTTGCATCG
* * * *
191592 TTTCAC-CTACATTTGCATTTTAGATGACATTGGTATTTGCATCATTTCATAGGCATTTGCCACT
1 TTTCACGC-ACATTCGCATTTTAGATAACATTCGCATTTGCATCATTTCATAGGCATTTGCCACT
* *
191656 TTATGGATGCTTGCATTTGCATCG
65 TTATGAATCCTTGCATTTGCATCG
* * **
191680 TTTCACGCATATTTGCACCATTAGATAACATTC
1 TTTCACGCACATTCGCA-TTTTAGATAACATTC
191713 ATCATTCTCT
Statistics
Matches: 97, Mismatches: 17, Indels: 11
0.78 0.14 0.09
Matches are distributed among these distances:
85 5 0.05
86 43 0.44
87 2 0.02
88 35 0.36
89 12 0.12
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (88 bp):
TTTCACGCACATTCGCATTTTAGATAACATTCGCATTTGCATCATTTCATAGGCATTTGCCACTT
TATGAATCCTTGCATTTGCATCG
Found at i:192563 original size:47 final size:47
Alignment explanation
Indices: 192490--193007 Score: 390
Period size: 47 Copynumber: 11.0 Consensus size: 47
192480 CAAATTTACT
* * *
192490 CTCGTTTGACTATATTAGCGTTAGGACCTGGTCAAACTCTTCTCATC
1 CTCGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTTTCATC
* * **
192537 CTCGTTTGACTATATTGGCGTAAGGACCTGAACAAACTC-TTTCA-C
1 CTCGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTTTCATC
** * * *
192582 CATTATTTGACT-TCATTAGCGTTAGGACCTAGTCAAACTCAAATTT-A-C
1 C-TCGTTTGACTGT-ATTGGCGTTAGGACCTGGTCAAACTC--TTTTCATC
* * * *
192630 TCTCGTTTGACTGTATTGGCATTAAGACCTTGTCAAACTCTTTTCGTC
1 -CTCGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTTTCATC
* * * * * * *
192678 CTTGTGTAACTGTATTGGCATTAGAACCTAGTCAAACTCTTTTCACC
1 CTCGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTTTCATC
* * ** *
192725 CTCGTTTGATTGTATTAGTATTAGGACTCT-GTCAAAATCTTTTCATC
1 CTCGTTTGACTGTATTGGCGTTAGGAC-CTGGTCAAACTCTTTTCATC
* * * *
192772 CTCATTTGACTCTATTGGCGTTAGG-GCTGGTCAAACTCTTTTCTTCC
1 CTCGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTTTCAT-C
* ** * * * * *
192819 CTTGTTTGACCATACTGGTGTTAGGGCTTGGTCAAACTCTTTGT-ACC
1 CTCGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTT-TCATC
* *
192866 CTTC-TTTGACTGTATTAGTGTTAGGACCTGGTCAAACTCTTTTCATC
1 C-TCGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTTTCATC
* * * * * *
192913 CATCATTTGACTATTTTGGTGTTAAGG-CCTGGTCAAACTTTTTTTATCC
1 C-TCGTTTGACTGTATTGGCGTT-AGGACCTGGTCAAACTCTTTTCAT-C
** * *
192962 CTCGTTTGACTGTATTGGTTTTAGGACCTAGTCAAACTCTTCTCAT
1 CTCGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTTTCAT
193008 TTCGATTTGA
Statistics
Matches: 373, Mismatches: 78, Indels: 39
0.76 0.16 0.08
Matches are distributed among these distances:
45 5 0.01
46 51 0.14
47 190 0.51
48 116 0.31
49 11 0.03
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (47 bp):
CTCGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTCTTTTCATC
Found at i:192714 original size:141 final size:142
Alignment explanation
Indices: 192445--192751 Score: 361
Period size: 141 Copynumber: 2.2 Consensus size: 142
192435 CTTTTTCATC
* *
192445 ATTTGACTGTATTAGCGTTAGGACCTAAGTAAATTCAAATTTACTCTCGTTTGACTATATTAGCG
1 ATTTGACTGTATTAGCGTTAGGACCTAAGTAAACTCAAATTTACTCTCGTTTGACTATATTAGCA
* * * * *
192510 TTAGGACCTGGTCAAACTCTTCTCATCCTCGTTTGACTATATTGGCGTAAGGACCTGAACAAACT
66 TTAAGACCTGGTCAAACTCTTCTCATCCTCGTGTAACTATATTGGCATAAGAACCTGAACAAACT
192575 C-TTTCACCATT
131 CTTTTCACCATT
* *
192586 ATTTGACT-TCATTAGCGTTAGGACCT-AGTCAAACTCAAATTTACTCTCGTTTGACTGTATTGG
1 ATTTGACTGT-ATTAGCGTTAGGACCTAAGT-AAACTCAAATTTACTCTCGTTTGACTATATTAG
* * * * * * *
192649 CATTAAGACCTTGTCAAACTCTTTTCGTCCTTGTGTAACTGTATTGGCATTAGAACCT-AGTCAA
64 CATTAAGACCTGGTCAAACTCTTCTCATCCTCGTGTAACTATATTGGCATAAGAACCTGA-ACAA
* *
192713 ACTCTTTTCACCCTC
128 ACTCTTTTCACCATT
* * **
192728 GTTTGATTGTATTAGTATTAGGAC
1 ATTTGACTGTATTAGCGTTAGGAC
192752 TCTGTCAAAA
Statistics
Matches: 139, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
140 5 0.04
141 107 0.77
142 26 0.19
143 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (142 bp):
ATTTGACTGTATTAGCGTTAGGACCTAAGTAAACTCAAATTTACTCTCGTTTGACTATATTAGCA
TTAAGACCTGGTCAAACTCTTCTCATCCTCGTGTAACTATATTGGCATAAGAACCTGAACAAACT
CTTTTCACCATT
Found at i:192780 original size:141 final size:143
Alignment explanation
Indices: 192494--193002 Score: 434
Period size: 141 Copynumber: 3.6 Consensus size: 143
192484 TTTACTCTCG
* * * * **
192494 TTTGACTATATTAGCGTT-AGGACCTGGTCAAACTCTTCTCAT-CCTCGTTTGACTATATTGGCG
1 TTTGACTATATTGGCGTTAAGG-CCTGGTCAAACTCTTTTCATCCCTTGTTTGACTGTATTGGTA
* * * * * ** *
192557 TAAGGACCT-GAACAAACTCTTT-CACCATTATTTGACT-TCATTAGCGTTAGGACCTAGTCAAA
65 TTAGGACCTAG-TCAAACTCTTTGTACCCTTCTTTGACTGT-ATTAGTATTAGGACCTGGTCAAA
* * *
192619 CTCAAATTT-A-CTC-TCG
128 ATC--TTTTCATC-CATCA
* * * * * * * *
192635 TTTGACTGTATTGGCATTAAGACCTTGTCAAACTCTTTTCGT-CCTTGTGTAACTGTATTGGCAT
1 TTTGACTATATTGGCGTTAAGGCCTGGTCAAACTCTTTTCATCCCTTGTTTGACTGTATTGGTAT
* *
192699 TAGAACCTAGTCAAACTCTTT-TCACCC-TCGTTTGATTGTATTAGTATTAGGACTCT-GTCAAA
66 TAGGACCTAGTCAAACTCTTTGT-ACCCTTC-TTTGACTGTATTAGTATTAGGAC-CTGGTCAAA
192761 ATCTTTTCATCC-TCA
128 ATCTTTTCATCCATCA
* * * ** * *
192776 TTTGACTCTATTGGCGTT-AGGGCTGGTCAAACTCTTTTCTTCCCTTGTTTGACCATACTGGTGT
1 TTTGACTATATTGGCGTTAAGGCCTGGTCAAACTCTTTTCATCCCTTGTTTGACTGTATTGGTAT
* * * * *
192840 TAGGGCTTGGTCAAACTCTTTGTACCCTTCTTTGACTGTATTAGTGTTAGGACCTGGTCAAACTC
66 TAGGACCTAGTCAAACTCTTTGTACCCTTCTTTGACTGTATTAGTATTAGGACCTGGTCAAAATC
192905 TTTTCATCCATCA
131 TTTTCATCCATCA
* * * * * *
192918 TTTGACTATTTTGGTGTTAAGGCCTGGTCAAACTTTTTTTATCCCTCGTTTGACTGTATTGGTTT
1 TTTGACTATATTGGCGTTAAGGCCTGGTCAAACTCTTTTCATCCCTTGTTTGACTGTATTGGTAT
192983 TAGGACCTAGTCAAACTCTT
66 TAGGACCTAGTCAAACTCTT
193003 CTCATTTCGA
Statistics
Matches: 295, Mismatches: 59, Indels: 26
0.78 0.16 0.07
Matches are distributed among these distances:
140 24 0.08
141 160 0.54
142 54 0.18
143 57 0.19
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (143 bp):
TTTGACTATATTGGCGTTAAGGCCTGGTCAAACTCTTTTCATCCCTTGTTTGACTGTATTGGTAT
TAGGACCTAGTCAAACTCTTTGTACCCTTCTTTGACTGTATTAGTATTAGGACCTGGTCAAAATC
TTTTCATCCATCA
Found at i:193112 original size:88 final size:88
Alignment explanation
Indices: 193015--193351 Score: 358
Period size: 88 Copynumber: 3.8 Consensus size: 88
193005 CATTTCGATT
* * *
193015 TGACATATGGTTACCACCTTGGTCAGATTCTTTTCATTTCGATTTAACTTATGGTTATCACCCTA
1 TGACGTATGGTTACCACCTTGGTCAGATTCTTTTCATTTCGATTTGACTTATGGTTACCACCCTA
*
193080 GTCAAATCAGCCTCCTTCTTGTC
66 GTCAAATCAGCCTCCTTCCTGTC
* * * *
193103 TAACGTATGGTTACTACCTTGGTCAGATTCTTTTTA-TTCTGATTTGACGTATGGTTACCACCCT
1 TGACGTATGGTTACCACCTTGGTCAGATTCTTTTCATTTC-GATTTGACTTATGGTTACCACCCT
* **
193167 AATCAAATCTA-CCTTTTTCCTGTC
65 AGTCAAATC-AGCCTCCTTCCTGTC
* ** * * *
193191 TGACGTATGGTTGCTGCCTTGGTCAGATTTTTTTCATTTTGATTTGA-TGTATAGTTACCACCCT
1 TGACGTATGGTTACCACCTTGGTCAGATTCTTTTCATTTCGATTTGACT-TATGGTTACCACCCT
* ** *
193255 -GATCAAGTTTGTCTCCTTCCTGTC
65 AG-TCAAATCAGCCTCCTTCCTGTC
* * * * * * *
193279 TGACGTATGGTTACCACCCTAGTCAAATTCTTTTCATTCCAATTTGACATATGGTTACCACCCTG
1 TGACGTATGGTTACCACCTTGGTCAGATTCTTTTCATTTCGATTTGACTTATGGTTACCACCCTA
193344 GTCAAATC
66 GTCAAATC
193352 TACCCTCAAC
Statistics
Matches: 201, Mismatches: 40, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
87 3 0.01
88 194 0.97
89 4 0.02
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.40
Consensus pattern (88 bp):
TGACGTATGGTTACCACCTTGGTCAGATTCTTTTCATTTCGATTTGACTTATGGTTACCACCCTA
GTCAAATCAGCCTCCTTCCTGTC
Found at i:193326 original size:176 final size:176
Alignment explanation
Indices: 193031--193355 Score: 429
Period size: 176 Copynumber: 1.8 Consensus size: 176
193021 ATGGTTACCA
* *
193031 CCTTGGTCAGATTCTTTTCATTTCGATTTAACTTATGGTTATCACCCTAGTCAAATCAGCCTCCT
1 CCTTGGTCAGATTCTTTTCATTTCGATTTAACTTATAGTTACCACCCTAGTCAAATCAGCCTCCT
* * * * * * ** *
193096 TCTTGTCTAACGTATGGTTACTACCTTGGTCAGATTCTTTTTATTCTGATTTGACGTATGGTTAC
66 TCCTGTCTAACGTATGGTTACCACCCTAGTCAAATTCTTTTCATTCCAATTTGACATATGGTTAC
193161 CACCCTAATCAAATCTACCTTTTTCCTGTCTGACGTATGGTTGCTG
131 CACCCTAATCAAATCTACCTTTTTCCTGTCTGACGTATGGTTGCTG
* * * * ** *
193207 CCTTGGTCAGATTTTTTTCATTTTGATTTGA-TGTATAGTTACCACCCT-GATCAAGTTTGTCTC
1 CCTTGGTCAGATTCTTTTCATTTCGATTTAACT-TATAGTTACCACCCTAG-TCAAATCAGCCTC
*
193270 CTTCCTGTCTGACGTATGGTTACCACCCTAGTCAAATTCTTTTCATTCCAATTTGACATATGGTT
64 CTTCCTGTCTAACGTATGGTTACCACCCTAGTCAAATTCTTTTCATTCCAATTTGACATATGGTT
**
193335 ACCACCCTGGTCAAATCTACC
129 ACCACCCTAATCAAATCTACC
193356 CTCAACTATC
Statistics
Matches: 126, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
175 2 0.02
176 124 0.98
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (176 bp):
CCTTGGTCAGATTCTTTTCATTTCGATTTAACTTATAGTTACCACCCTAGTCAAATCAGCCTCCT
TCCTGTCTAACGTATGGTTACCACCCTAGTCAAATTCTTTTCATTCCAATTTGACATATGGTTAC
CACCCTAATCAAATCTACCTTTTTCCTGTCTGACGTATGGTTGCTG
Found at i:193348 original size:44 final size:44
Alignment explanation
Indices: 192992--193350 Score: 201
Period size: 44 Copynumber: 8.2 Consensus size: 44
192982 TTAGGACCTA
* * * * *
192992 GTCAAACTCTTCTCATTTCGATTTGACATATGGTTACCACCTTG
1 GTCAAATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTG
* * * * * *
193036 GTCAGATTCTTTTCATTTCGATTTAACTTATGGTTATCACCCTA
1 GTCAAATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTG
*** * * * * * *
193080 GTCAAA-TCAGCCTCCTTCTTG-TCTAACGTATGGTTACTACCTTG
1 GTCAAATTC-TTTTCATTC-CGATTTGACGTATGGTTACCACCCTG
* * * *
193124 GTCAGATTCTTTTTATTCTGATTTGACGTATGGTTACCACCCTA
1 GTCAAATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTG
* * * * ** *
193168 ATCAAATCTACCTTT--TTCCTG-TCTGACGTATGGTTGCTGCCTTG
1 GTCAAAT-T-CTTTTCATTCC-GATTTGACGTATGGTTACCACCCTG
* * ** * *
193212 GTCAGATTTTTTTCATTTTGATTTGATGTATAGTTACCACCCTG
1 GTCAAATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTG
* * * * * *
193256 ATCAAGTT-TGTCTCCTTCCTG-TCTGACGTATGGTTACCACCCTA
1 GTCAAATTCT-TTTCATTCC-GATTTGACGTATGGTTACCACCCTG
* *
193300 GTCAAATTCTTTTCATTCCAATTTGACATATGGTTACCACCCTG
1 GTCAAATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTG
193344 GTCAAAT
1 GTCAAAT
193351 CTACCCTCAA
Statistics
Matches: 227, Mismatches: 74, Indels: 28
0.69 0.22 0.09
Matches are distributed among these distances:
42 3 0.01
43 7 0.03
44 206 0.91
45 7 0.03
46 4 0.02
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (44 bp):
GTCAAATTCTTTTCATTCCGATTTGACGTATGGTTACCACCCTG
Found at i:193665 original size:42 final size:43
Alignment explanation
Indices: 193535--193747 Score: 186
Period size: 42 Copynumber: 5.0 Consensus size: 43
193525 TCTGATACCT
* * ** *
193535 TTTATCCTTTGTCTACCCGTCGGCTCAAG-CTTAGGAGAGTTC
1 TTTATCTTTTGTCTGCCCGTCGGCTCAAGCCCGAGGAGACTTC
* * * * * *
193577 TTTATCTTTTGTTTGCCCATTGGTTCAAACCCGA-GAAACTTC
1 TTTATCTTTTGTCTGCCCGTCGGCTCAAGCCCGAGGAGACTTC
* * * *
193619 TTTATCCTTTGTCTACCCGTCGGCTCAAGCCTGAGG-GACTTT
1 TTTATCTTTTGTCTGCCCGTCGGCTCAAGCCCGAGGAGACTTC
* *
193661 TTTATCTTTTTGTCTGCCTGTCAGCTC-AGACCCG-GGAGACTTC
1 TTTATC-TTTTGTCTGCCCGTCGGCTCAAG-CCCGAGGAGACTTC
* * *
193704 TTTATCTTTTGTCTGCTCGTCGGCTCAGGCTCGA-GAGACTTC
1 TTTATCTTTTGTCTGCCCGTCGGCTCAAGCCCGAGGAGACTTC
193746 TT
1 TT
193748 CACCTTTTTG
Statistics
Matches: 132, Mismatches: 32, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
42 98 0.74
43 34 0.26
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.38
Consensus pattern (43 bp):
TTTATCTTTTGTCTGCCCGTCGGCTCAAGCCCGAGGAGACTTC
Found at i:193726 original size:85 final size:84
Alignment explanation
Indices: 193535--193765 Score: 241
Period size: 85 Copynumber: 2.7 Consensus size: 84
193525 TCTGATACCT
* * * **
193535 TTTATCCTTTGTCTACCCGTCGGCTCAAGCTTAGGAGAGTTCTTTATCTTTTGTTTGCCCATTGG
1 TTTATCCTTTGTCTACCCGTCGGCTCAAGCTGAGGAGACTTCTTTATCTTTTGTCTGCCCATCAG
*
193600 TTCAAACCCGAGAAACTTC
66 CTCAAACCCGAGAAACTTC
* **
193619 TTTATCCTTTGTCTACCCGTCGGCTCAAGCCTGAGG-GACTTTTTTATCTTTTTGTCTGCCTGTC
1 TTTATCCTTTGTCTACCCGTCGGCTCAAG-CTGAGGAGACTTCTTTATC-TTTTGTCTGCCCATC
* * *
193683 AGCTCAGACCCGGGAGACTTC
64 AGCTCAAACCCGAGAAACTTC
* * * * * * *
193704 TTTATCTTTTGTCTGCTCGTCGGCTCAGGCTCGA-GAGACTTCTTCACCTTTTTGTTTGCCCA
1 TTTATCCTTTGTCTACCCGTCGGCTCAAGCT-GAGGAGACTTCTTTATC-TTTTGTCTGCCCA
193766 GTGATTCAGT
Statistics
Matches: 121, Mismatches: 22, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
84 42 0.35
85 79 0.65
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.39
Consensus pattern (84 bp):
TTTATCCTTTGTCTACCCGTCGGCTCAAGCTGAGGAGACTTCTTTATCTTTTGTCTGCCCATCAG
CTCAAACCCGAGAAACTTC
Found at i:194648 original size:20 final size:20
Alignment explanation
Indices: 194623--194692 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
194613 CCCTAGAAAA
194623 TATCGATACATATCT-AGATG
1 TATCGATACATATCTCA-ATG
* *
194643 TATCGATACATGT-TCATTG
1 TATCGATACATATCTCAATG
194662 TATCGATACATA-CTCAATTG
1 TATCGATACATATCTCAA-TG
194682 TATCGATACAT
1 TATCGATACAT
194693 GAAATTGGCA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
19 17 0.40
20 26 0.60
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (20 bp):
TATCGATACATATCTCAATG
Found at i:194665 original size:19 final size:20
Alignment explanation
Indices: 194641--194693 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
194631 CATATCTAGA
*
194641 TGTATCGATACATGTTC-AT
1 TGTATCGATACATGCTCAAT
*
194660 TGTATCGATACATACTCAAT
1 TGTATCGATACATGCTCAAT
194680 TGTATCGATACATG
1 TGTATCGATACATG
194694 AAATTGGCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:194767 original size:20 final size:20
Alignment explanation
Indices: 194724--194775 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
194714 TAAGTGAAAT
* **
194724 GTATCGATACATGGGACATT
1 GTATCGATACATGGGAAAAA
*
194744 GTATCGATACATGGTAAAAA
1 GTATCGATACATGGGAAAAA
*
194764 GTATTGATACAT
1 GTATCGATACAT
194776 TATGCCCAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGGGAAAAA
Found at i:197639 original size:83 final size:83
Alignment explanation
Indices: 197540--197707 Score: 327
Period size: 83 Copynumber: 2.0 Consensus size: 83
197530 TTCACGGAAA
197540 TCAAATCAAAGGAAGGTGGATGTGTTACATTTGGTGATAATTCGAAAGAAAAAATCGAAAGAATC
1 TCAAATCAAAGGAAGGTGGATGTGTTACATTTGGTGATAATTCGAAAGAAAAAATCGAAAGAATC
*
197605 AGCACCATTGGTAACAAC
66 AACACCATTGGTAACAAC
197623 TCAAATCAAAGGAAGGTGGATGTGTTACATTTGGTGATAATTCGAAAGAAAAAATCGAAAGAATC
1 TCAAATCAAAGGAAGGTGGATGTGTTACATTTGGTGATAATTCGAAAGAAAAAATCGAAAGAATC
197688 AACACCATTGGTAACAAC
66 AACACCATTGGTAACAAC
197706 TC
1 TC
197708 TTCATTTTGT
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.23
Consensus pattern (83 bp):
TCAAATCAAAGGAAGGTGGATGTGTTACATTTGGTGATAATTCGAAAGAAAAAATCGAAAGAATC
AACACCATTGGTAACAAC
Found at i:203602 original size:20 final size:19
Alignment explanation
Indices: 203579--203651 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
203569 CATATCTAGA
*
203579 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGT-T-CAT
*
203599 TGTATCAATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
203618 TGTATCGATACATACTCAAT
1 TGTATCGATACATGTTC-AT
*
203638 TATATCGATACATG
1 TGTATCGATACATG
203652 AAACTAGCAG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.36
20 27 0.61
21 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:206100 original size:23 final size:23
Alignment explanation
Indices: 206069--206126 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 23
206059 GCTCTTGGAT
206069 AAAGAAAAAAGAGAGAAAG-AAAAG
1 AAAGAAAAAA-AGA-AAAGAAAAAG
*
206093 GAAGAAAAAAAGAAAAGAAAAAG
1 AAAGAAAAAAAGAAAAGAAAAAG
206116 AAAGAAAAAAA
1 AAAGAAAAAAA
206127 AAACTAGGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 4 0.13
23 18 0.58
24 9 0.29
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (23 bp):
AAAGAAAAAAAGAAAAGAAAAAG
Found at i:206128 original size:15 final size:15
Alignment explanation
Indices: 206069--206129 Score: 61
Period size: 15 Copynumber: 3.9 Consensus size: 15
206059 GCTCTTGGAT
* *
206069 AAAGAAAAAAGAGAG
1 AAAGAAAAAAAAAAG
206084 AAAGAAAAGGAAGAAAA-
1 AAAGAAAA--AA-AAAAG
*
206101 AAAGAAAAGAAAAAG
1 AAAGAAAAAAAAAAG
206116 AAAGAAAAAAAAAA
1 AAAGAAAAAAAAAA
206130 CTAGGGAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 4 0.11
15 22 0.58
17 10 0.26
18 2 0.05
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAAAAG
Found at i:207138 original size:166 final size:166
Alignment explanation
Indices: 206708--207150 Score: 427
Period size: 166 Copynumber: 2.7 Consensus size: 166
206698 GTGGTAAAAT
* * * * * * *
206708 TAAATATTAATCA-TTTTTCAATCTTTTATATTCTTATGGGGGTGCATCGGAGTATAAAAGATTT
1 TAAATATTAATTATTTTTTTAATCTTTTATATTCCTATAGGGGTTCGTAGGAGTATAAAAGATTT
* * * * **
206772 TTAAAACTTTTCGTTTTTCTTTTAGGCTTCCATTAAGGTACGAAATGGTATTTTCCAAATGAACA
66 TAAAAACTTTTCATATCT-TTTTAGAATTCCATTAAGGTACGAAATGGTATTTTCCAAATGAACA
* * **
206837 AATAAATAAAATTAAATTAACAATTTCATAATGGAAA
130 AAAAAATAAAATTAAATCAACAATTTCATAATCCAAA
* *
206874 TAAATATTAATTATTTTTTTAATCTTTTATATTCCTATAAGGG-TCTGTAGGTGTATAAAAGATT
1 TAAATATTAATTATTTTTTTAATCTTTTATATTCCTATAGGGGTTC-GTAGGAGTATAAAAGATT
* * * * * * * ***
206938 TCAAAAGCTTTTTATATCTTTTTGGGCA-TCCATTAAAGAACGAAATGGTATTTT-TTGAT-AAC
65 TTAAAAACTTTTCATATCTTTTT-AGAATTCCATTAAGGTACGAAATGGTATTTTCCAAATGAAC
* *
207000 AAACAAAATTAAATTAAATCAACACTTTCATAA-CCAAGA
129 AAA-AAAATAAAATTAAATCAACAATTTCATAATCCAA-A
* * *
207039 T-AATTTTATATCT-TTCTTTTTAAATCTTTTATATTCCTAT-GGGGTTCGTAGGGGTATAAAAT
1 TAAATATTA-AT-TATT-TTTTT-AATCTTTTATATTCCTATAGGGGTTCGTAGGAGTATAAAAG
*
207101 ATTTTAAAAACTTTTCATATCTTTTTATAATTCCATTAAGGTACGAAATG
62 ATTTTAAAAACTTTTCATATCTTTTTAGAATTCCATTAAGGTACGAAATG
207151 AATTTTTGTA
Statistics
Matches: 224, Mismatches: 42, Indels: 22
0.78 0.15 0.08
Matches are distributed among these distances:
164 14 0.06
165 34 0.15
166 103 0.46
167 73 0.33
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.42
Consensus pattern (166 bp):
TAAATATTAATTATTTTTTTAATCTTTTATATTCCTATAGGGGTTCGTAGGAGTATAAAAGATTT
TAAAAACTTTTCATATCTTTTTAGAATTCCATTAAGGTACGAAATGGTATTTTCCAAATGAACAA
AAAAATAAAATTAAATCAACAATTTCATAATCCAAA
Found at i:207680 original size:154 final size:154
Alignment explanation
Indices: 207395--207930 Score: 482
Period size: 153 Copynumber: 3.5 Consensus size: 154
207385 CCACATCCAT
* * * * *
207395 ATCTTTTTTAAGTCCTTTCA-GGCTACCAGGA-ACTTTTACGTCGAAGATATCCCCTAGGAGCAT
1 ATCTTTTTTAAGTCCTTT-AGGGGTATC-GGATACTTCTATGTCGAAGATATCCCCTAGGGGCAT
* * * * * * **
207458 TTTCGTAATTTTGTAGAATCGAA-TCCTAGGTTGTCACCAGGTCCGTTTTTATGTTGAAA-GTGG
64 TTTTGTAATTTTTTAGAA-CCAAGTCTTAGGTTGTCATCAGGTCCGCTTTTATG-CAAAAGGTGG
* *
207521 GTATTTAGGATAGGTTCATCCCATACAT
127 ATATTTAGGATAGGTTCATCCCATACAA
* * * * * * *
207549 ATCTTTTTCAAGTCCTTTAGGGATA-CAGGATAATTTTATGTCGAAGGTATCCCTTTGGGGCATT
1 ATCTTTTTTAAGTCCTTTAGGGGTATC-GGATACTTCTATGTCGAAGATATCCCCTAGGGGCATT
* *
207613 TTTGTAATTTTTTAGAACCAAGTCTTAAGTTGTCATCAAGTCCGCTTTTATGCAAAAGGTGGATA
65 TTTGTAATTTTTTAGAACCAAGTCTTAGGTTGTCATCAGGTCCGCTTTTATGCAAAAGGTGGATA
207678 TTTAGGATAGGTTCAT-CCAT-CTAA
130 TTTAGGATAGGTTCATCCCATAC-AA
* * * * * * * * *
207702 ACCCTTTTTAGGTCTTTTAGGGGTATCGGGTACTTCTATGTTGAA-AGTATCCCTTAAGGTCATT
1 ATCTTTTTTAAGTCCTTTAGGGGTATCGGATACTTCTATGTCGAAGA-TATCCCCTAGGGGCATT
* * ** * * ** * *
207766 TTAGTAATTTTTTAAAACTGAGTCTTAGGTTATCATCGGGTTTGCTTTTATGCCAAAGGTAGATA
65 TTTGTAATTTTTTAGAACCAAGTCTTAGGTTGTCATCAGGTCCGCTTTTATGCAAAAGGTGGATA
*
207831 TTTA--ATAGGTTCATCCCTTTTA-AA
130 TTTAGGATAGGTTCATCCC--ATACAA
* * *
207855 ATCTTTTTTAAGTCCTTTAGGGGTATCGGGTACTTCTATGTCGAAGATATCCCCTAGGGGTAATT
1 ATCTTTTTTAAGTCCTTTAGGGGTATCGGATACTTCTATGTCGAAGATATCCCCTAGGGGCATTT
*
207920 TTATAATTTTT
66 TTGTAATTTTT
207931 CTTAAACTTA
Statistics
Matches: 311, Mismatches: 59, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
151 10 0.03
152 3 0.01
153 185 0.59
154 113 0.36
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.40
Consensus pattern (154 bp):
ATCTTTTTTAAGTCCTTTAGGGGTATCGGATACTTCTATGTCGAAGATATCCCCTAGGGGCATTT
TTGTAATTTTTTAGAACCAAGTCTTAGGTTGTCATCAGGTCCGCTTTTATGCAAAAGGTGGATAT
TTAGGATAGGTTCATCCCATACAA
Found at i:209713 original size:53 final size:53
Alignment explanation
Indices: 209651--209760 Score: 211
Period size: 53 Copynumber: 2.1 Consensus size: 53
209641 AAGATAGTGG
*
209651 GGTTGGAGTATCCTTGATGGTGAAAATTTTGATGCTTTTAGAAGTAAAAACGA
1 GGTTGGAGTATCCCTGATGGTGAAAATTTTGATGCTTTTAGAAGTAAAAACGA
209704 GGTTGGAGTATCCCTGATGGTGAAAATTTTGATGCTTTTAGAAGTAAAAACGA
1 GGTTGGAGTATCCCTGATGGTGAAAATTTTGATGCTTTTAGAAGTAAAAACGA
209757 GGTT
1 GGTT
209761 AGAATATGTC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (53 bp):
GGTTGGAGTATCCCTGATGGTGAAAATTTTGATGCTTTTAGAAGTAAAAACGA
Found at i:210967 original size:20 final size:21
Alignment explanation
Indices: 210930--210975 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
210920 TTCTACAATT
210930 TGTATCAATATAATAAGTAAA
1 TGTATCAATATAATAAGTAAA
* *
210951 TGTATCAATA-CATAAGTCAA
1 TGTATCAATATAATAAGTAAA
210971 TGTAT
1 TGTAT
210976 TGATACATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.35
Consensus pattern (21 bp):
TGTATCAATATAATAAGTAAA
Found at i:211095 original size:51 final size:52
Alignment explanation
Indices: 211040--211164 Score: 164
Period size: 51 Copynumber: 2.4 Consensus size: 52
211030 TCTGAAAAGA
* * * *
211040 AAATGTATCGATACATTTTTTATTATATTAATACATT-TTGAG-TTTTGACCT
1 AAATGTATCGATACATTATTCATTATATTAATACATTCTAG-GTTTTTGACCC
* *
211091 AAATGTATCGATACATTATTCATTGTATTGATACATTCTAGGTTTTTGACCC
1 AAATGTATCGATACATTATTCATTATATTAATACATTCTAGGTTTTTGACCC
*
211143 AAATGTATCGATACATTCTTCA
1 AAATGTATCGATACATTATTCA
211165 ATGTATCGAT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
51 34 0.52
52 31 0.48
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (52 bp):
AAATGTATCGATACATTATTCATTATATTAATACATTCTAGGTTTTTGACCC
Found at i:211158 original size:52 final size:51
Alignment explanation
Indices: 211040--211178 Score: 172
Period size: 52 Copynumber: 2.7 Consensus size: 51
211030 TCTGAAAAGA
* * * * * *
211040 AAATGTATCGATACATTTTTTATTATATTAATACATTTTGAGTTTTGACCT
1 AAATGTATCGATACATTATTCATTGTATTGATACATTTAGAGTTTTGACCC
211091 AAATGTATCGATACATTATTCATTGTATTGATACATTCTAG-GTTTTTGACCC
1 AAATGTATCGATACATTATTCATTGTATTGATACATT-TAGAG-TTTTGACCC
* * *
211143 AAATGTATCGATACATTCTTCAATGTATCGATACAT
1 AAATGTATCGATACATTATTCATTGTATTGATACAT
211179 GTAGGCTATT
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
51 34 0.44
52 43 0.56
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.43
Consensus pattern (51 bp):
AAATGTATCGATACATTATTCATTGTATTGATACATTTAGAGTTTTGACCC
Found at i:212174 original size:20 final size:20
Alignment explanation
Indices: 212151--212225 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
212141 AAGTACCCAG
212151 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
212171 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
212191 ATATATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
212211 ATGTATCAATACATT
1 ATGTATCGATACATT
212226 CTATCTTTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:213171 original size:20 final size:22
Alignment explanation
Indices: 213132--213179 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
213122 TAGCCTTTGA
*
213132 CCATGCATTTTTTTATTATGTT
1 CCATGCATTTTTTCATTATGTT
213154 CCATGCA-TTTTTCA-TATG-T
1 CCATGCATTTTTTCATTATGTT
213173 CCA-GCAT
1 CCATGCAT
213180 CTCATTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.12
19 4 0.17
20 4 0.17
21 6 0.25
22 7 0.29
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.48
Consensus pattern (22 bp):
CCATGCATTTTTTCATTATGTT
Found at i:214515 original size:97 final size:97
Alignment explanation
Indices: 214385--214584 Score: 337
Period size: 97 Copynumber: 2.1 Consensus size: 97
214375 TTATTCACAT
* * *
214385 CAACCCCGCTTTTAAACTTGTCAAGATTTAAATCTTATTCTCGCTTAAATTGTCATCATCGGGGA
1 CAACCCCGCTTTTAAACTTATCAAGATTCAAATCTTATTCTCACTTAAATTGTCATCATCGGGGA
* * *
214450 CATTCTAACCCCATTCCTCCGAGGGGATACTC
66 CACTCCAACCCCATTCCTCCGAGAGGATACTC
*
214482 CAACCTCGCTTTTAAACTTATCAAGATTCAAATCTTATTCTCACTTAAATTGTCATCATCGGGGA
1 CAACCCCGCTTTTAAACTTATCAAGATTCAAATCTTATTCTCACTTAAATTGTCATCATCGGGGA
214547 CACTCCAACCCCATTCCTCCGAGAGGATACTC
66 CACTCCAACCCCATTCCTCCGAGAGGATACTC
214579 CAACCC
1 CAACCC
214585 TTTTTTTTTT
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (97 bp):
CAACCCCGCTTTTAAACTTATCAAGATTCAAATCTTATTCTCACTTAAATTGTCATCATCGGGGA
CACTCCAACCCCATTCCTCCGAGAGGATACTC
Found at i:221215 original size:79 final size:78
Alignment explanation
Indices: 221008--221216 Score: 244
Period size: 79 Copynumber: 2.6 Consensus size: 78
220998 TAGAGATAAC
* ** * * *
221008 AACGGGGCTGGAGTATCCCCCGATTATGGGAAATCGGTG-TTCTGGAAATAAAATTAGGGTTGGA
1 AACGGGGTTGGAGTAT--CCCGATTATGAAAAATCGATGATT-TAGAAATAAAATCAGGGTTGGA
221072 GTATCCCCTCGAAAAT
63 GTATCCCCTCGAAAAT
* * * *
221088 AACAGGGTTGGAGTATCCCTGATTAT-AGAAAATTGAT-ATTTTGAAAATAAAATCGGGGTTGGA
1 AACGGGGTTGGAGTATCCC-GATTATGA-AAAATCGATGATTTAG-AAATAAAATCAGGGTTGGA
221151 GTATCCCCTCGAAAAT
63 GTATCCCCTCGAAAAT
221167 AACGGGGTTGGAGTATCCTCGATTATGAAAAATCGATGATTTAGAAATAA
1 AACGGGGTTGGAGTATCC-CGATTATGAAAAATCGATGATTTAGAAATAA
221217 GGCAAGGGTT
Statistics
Matches: 110, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
78 5 0.05
79 84 0.76
80 21 0.19
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (78 bp):
AACGGGGTTGGAGTATCCCGATTATGAAAAATCGATGATTTAGAAATAAAATCAGGGTTGGAGTA
TCCCCTCGAAAAT
Found at i:221241 original size:51 final size:50
Alignment explanation
Indices: 221169--221391 Score: 250
Period size: 51 Copynumber: 4.4 Consensus size: 50
221159 TCGAAAATAA
* * *
221169 CGGGGTTGGAGTATCCTCGATTATGAAAAATCGATGATTTAGAAATAAGG
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGATTTAGAAATAAGG
* * * *
221219 CAAGGGTTGAAGTATACCCGATTGTGAGAAATCAATGATTTAGAAATAAGG
1 C-GGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGATTTAGAAATAAGG
* * * * *
221270 CTGGGGTTGAAGTATCCCCGATTGTGAGAAATTAAT-ATTTTTGAAATAAAGC
1 C-GGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGA-TTTAGAAAT-AAGG
* * * *
221322 CGAGGTTGGAGTATCCCCGATTGTGGAAAATCGATGCTTTAGAAATAAGG
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGATTTAGAAATAAGG
221372 CCGGGGTTGGAGTATCCCCG
1 -CGGGGTTGGAGTATCCCCG
221392 CGGAAATAAC
Statistics
Matches: 145, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
50 5 0.03
51 136 0.94
52 4 0.03
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (50 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATGATTTAGAAATAAGG
Found at i:221475 original size:51 final size:51
Alignment explanation
Indices: 221407--221521 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
221397 ATAACGGGGT
* *
221407 TTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGGAATAAAGCT-AGGG
1 TTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAAT-AAGCTCAGGG
** * * * * *
221458 TTGGAGTATCCTTGATTGTGGAAAATCGATGCTTTAGAAATAAGGTCGGGG
1 TTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAAGCTCAGGG
221509 TTGGAGTATCCCC
1 TTGGAGTATCCCC
221522 CCGGAAATAA
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 4 0.08
51 48 0.92
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (51 bp):
TTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAAGCTCAGGG
Found at i:221514 original size:131 final size:130
Alignment explanation
Indices: 221272--221600 Score: 534
Period size: 131 Copynumber: 2.5 Consensus size: 130
221262 AAATAAGGCT
* * * *
221272 GGGGTTGAAGTATCCCCGATTGTGAGAAATTAATATTTTTGAAATAAAGCCGAGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAGCCGAGGTTGGAGTATC
*
221337 CCCGATTGTGGAAAATCGATGCTTTAGAAATAAGGCCGGGGTTGGAGTATCCCCGCGGAAATAAC
66 CCCGATTGTGGAAAATCGATGCTTTAGAAATAAGGCCGGGGTTGGAGTATCCCCCCGGAAATAAC
* *
221402 GGGGTTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGGAATAAAG-CTAGGGTTGGAGTA
1 GGGG-TTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAGCCGA-GGTTGGAGTA
** *
221466 TCCTTGATTGTGGAAAATCGATGCTTTAGAAATAAGGTCGGGGTTGGAGTATCCCCCCGGAAATA
64 TCCCCGATTGTGGAAAATCGATGCTTTAGAAATAAGGCCGGGGTTGGAGTATCCCCCCGGAAATA
221531 AC
129 AC
*
221533 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAACCGAGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAGCCGAGGTTGGAGTATC
221598 CCC
66 CCC
221601 CTCGAAAATA
Statistics
Matches: 181, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
130 62 0.34
131 119 0.66
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (130 bp):
GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAGCCGAGGTTGGAGTATC
CCCGATTGTGGAAAATCGATGCTTTAGAAATAAGGCCGGGGTTGGAGTATCCCCCCGGAAATAAC
Found at i:221547 original size:79 final size:80
Alignment explanation
Indices: 221455--221632 Score: 234
Period size: 79 Copynumber: 2.2 Consensus size: 80
221445 AATAAAGCTA
* * * *** *
221455 GGGTTGGAGTATCCTTGATTGTG-GAAAATCGATGCTTTAGAAATAAGGTCGGGGTTGGAGTATC
1 GGGTTGGAGTATCCCTGATTGTGAG-AAATCAATACTTTAGAAATAAAACCGAGGTTGGAGTATC
*
221519 CCCC-CGGAAATAACG
65 CCCCTCGAAAATAACG
* * *
221534 GGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAACCGAGGTTGGAGTATCC
1 GGGTTGGAGTATCCCTGATTGTGAGAAATCAATACTTTAGAAATAAAACCGAGGTTGGAGTATCC
221599 CCCTCGAAAATAACG
66 CCCTCGAAAATAACG
221614 GGGTTGGAGTATCCCTGAT
1 GGGTTGGAGTATCCCTGAT
221633 GAAATACCGG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 56 0.66
80 29 0.34
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.26
Consensus pattern (80 bp):
GGGTTGGAGTATCCCTGATTGTGAGAAATCAATACTTTAGAAATAAAACCGAGGTTGGAGTATCC
CCCTCGAAAATAACG
Found at i:221619 original size:29 final size:29
Alignment explanation
Indices: 221586--221657 Score: 96
Period size: 28 Copynumber: 2.5 Consensus size: 29
221576 ATAAAACCGA
221586 GGTTGGAGTATCCCCCTCGA-AAATAACGG
1 GGTTGGAGTATCCCCCT-GAGAAATAACGG
*
221615 GGTTGGAGTAT--CCCTGATGAAATACCGG
1 GGTTGGAGTATCCCCCTGA-GAAATAACGG
221643 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
221658 GATTGTGCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
26 2 0.05
27 4 0.11
28 19 0.50
29 11 0.29
30 2 0.05
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.24
Consensus pattern (29 bp):
GGTTGGAGTATCCCCCTGAGAAATAACGG
Found at i:221706 original size:51 final size:51
Alignment explanation
Indices: 221644--221812 Score: 241
Period size: 51 Copynumber: 3.3 Consensus size: 51
221634 AAATACCGGG
*
221644 GTTGGAGTATCCCCGATTGTGCAAAATTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGGA
* * *
221695 GTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTAGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * * *
221746 GTTGTAGTATCTCCGATTGTGGAAAATTGATGTTGTGGAAATAAAACCAGG-
1 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATC-GGA
221797 GTTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
221813 GATGAAAAAT
Statistics
Matches: 103, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
51 101 0.98
52 2 0.02
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:224211 original size:20 final size:20
Alignment explanation
Indices: 224159--224212 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
224149 GTAAATCCAG
* *
224159 AATGTATCGATTCAATGAGC
1 AATGTATCGATACAATGAAC
224179 AATGTAT-GATACAATGAAC
1 AATGTATCGATACAATGAAC
224198 AATGTATCGATACAA
1 AATGTATCGATACAA
224213 ATTGTGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:224905 original size:41 final size:41
Alignment explanation
Indices: 224806--224907 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 41
224796 ATCCCACTAT
* *
224806 TTGAGGACAAAGG-AAAAGAGAATGAAATAAGTCTTGCTCC
1 TTGAGGACAAAGGAAAAAGAAAAGGAAATAAGTCTTGCTCC
* *
224846 TTGAGGACAAAGGAAAAAAGAAAAGGAAA-ATGT-TCTGCTTC
1 TTGAGGACAAAGG-AAAAAGAAAAGGAAATAAGTCT-TGCTCC
224887 TTGAGGACAAAGTGAAAAAGA
1 TTGAGGACAAAG-GAAAAAGA
224908 GTACATCTTA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
40 14 0.26
41 27 0.50
42 13 0.24
ACGTcount: A:0.46, C:0.10, G:0.25, T:0.19
Consensus pattern (41 bp):
TTGAGGACAAAGGAAAAAGAAAAGGAAATAAGTCTTGCTCC
Found at i:224986 original size:42 final size:41
Alignment explanation
Indices: 224916--225097 Score: 158
Period size: 42 Copynumber: 4.3 Consensus size: 41
224906 GAGTACATCT
*
224916 TACT-TTTCGAGGACAAAGAAAAAAAGGAAAACGAAATGCGTCC
1 TACTCTTT-GAGGACAAAG-GAAAAAGGAAAA-GAAATGCGTCC
* * *
224959 TGCTCTTTGAGGACAAAGGAAAGAGGAAAATAAAGTGCGTCC
1 TACTCTTTGAGGACAAAGGAAAAAGGAAAAGAAA-TGCGTCC
* * * * *
225001 TACTATTTGAGGACAAAAGGGAAAAGAAGGGAATGAAGTGTGTCC
1 TACTCTTTGAGGAC-AAA-GG-AAA-AAGGAAAAGAAATGCGTCC
225046 TACTCTTTGAGGACAAAGGAGAAAAGGAAAAG----GCGTCC
1 TACTCTTTGAGGACAAAGGA-AAAAGGAAAAGAAATGCGTCC
*
225084 TACTCTTTAAGGAC
1 TACTCTTTGAGGAC
225098 TAAAAAGTGC
Statistics
Matches: 115, Mismatches: 17, Indels: 19
0.76 0.11 0.13
Matches are distributed among these distances:
38 18 0.16
41 3 0.03
42 37 0.32
43 20 0.17
44 8 0.07
45 22 0.19
46 7 0.06
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.19
Consensus pattern (41 bp):
TACTCTTTGAGGACAAAGGAAAAAGGAAAAGAAATGCGTCC
Found at i:225151 original size:61 final size:61
Alignment explanation
Indices: 225067--225431 Score: 365
Period size: 61 Copynumber: 6.1 Consensus size: 61
225057 GACAAAGGAG
* * * * * *
225067 AAAAGGAAAAGGCGTCCTACTCTTTAAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTCT
1 AAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
** * ** * * *
225128 AAAAAGAAAAGGTGTCTTGCTCTTTGAGGACTGGAAGGTGCCACGAACTTTTGTGGGCTTT
1 AAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
** ** * * *
225189 GCAAAGAGAAA-GCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTCGAGTGGTCTTT
1 AAAAAGA-AAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
* *
225250 AAAAGGAGAAA-GCATCCTGCTCTTTGAGGACTGCAAAA-TGCCACCAACTTGTGTGGGCTTT
1 AAAAAGA-AAAGGCATCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTT
** *
225311 -----G-AAAGGTGTCCAGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTT
1 AAAAAGAAAAGGCATCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTT
225366 -AAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAAG-AAAAGGCATCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTT
225428 AAAA
1 AAAA
225432 GGCATCCTGC
Statistics
Matches: 254, Mismatches: 38, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
54 3 0.01
55 45 0.18
56 1 0.00
59 1 0.00
61 172 0.68
62 29 0.11
63 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (61 bp):
AAAAAGAAAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:225305 original size:122 final size:116
Alignment explanation
Indices: 225072--225454 Score: 429
Period size: 122 Copynumber: 3.2 Consensus size: 116
225062 AGGAGAAAAG
* * * * *
225072 GAAA-AGGCGTCCTACTCTTTAAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTCTAAAAAGAA
1 GAAAGAGGCATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTCGTGTGGGCT-TTAAAAGAA
** * ** * *
225136 AAGGTGTCTTGCTCTTTGAGGACTGGAAGGTGCCACGAACTTTTGTGGGCTTT
65 AAGGCATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT
* * *
225189 GCAAAGAGAAAGCATCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTCGAGTGGTCTTTAAAA
1 G-AAAGAG---GCATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTCGTGTGGGCTTTAAAA
225254 GGAGAAA-GCATCCTGCTCTTTGAGGACTGCAAAATGCCACCAACTTGTGTGGGCTTT
62 -GA-AAAGGCATCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTT
* * *
225311 GAAAG-GTG--TCCAGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAA
1 GAAAGAG-GCATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTCGTGTGGGCTTTAAAAG-A
225373 AAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
64 AAAGGCATCCTGCTCTTTGAGGACT-GAAAA-TGCCACCAACTTGTGTGGGCTTT
*
225428 -AAA-AGGCATCCTGCTCTTTGAAGACTA
1 GAAAGAGGCATCCTGCTCTTTGAGGACTA
225455 AAGGGCGAAA
Statistics
Matches: 227, Mismatches: 24, Indels: 30
0.81 0.09 0.11
Matches are distributed among these distances:
115 5 0.02
116 75 0.33
117 42 0.19
118 4 0.02
119 2 0.01
120 1 0.00
121 10 0.04
122 85 0.37
123 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (116 bp):
GAAAGAGGCATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGAAA
AGGCATCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:225343 original size:55 final size:55
Alignment explanation
Indices: 225257--225454 Score: 265
Period size: 55 Copynumber: 3.5 Consensus size: 55
225247 TTTAAAAGGA
225257 GAAA-GCATCCTGCTCTTTGAGGACT-GCAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAGGCATCCTGCTCTTTGAGGACTAG-AAAATGCCACCAACTTGTGTGGGCTTT
** *
225311 GAAAGGTGTCCAGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAGGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
225366 AAAAGAAAAAGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
1 ----G--AAAGGCATCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTT
* *
225428 AAAAGGCATCCTGCTCTTTGAAGACTA
1 GAAAGGCATCCTGCTCTTTGAGGACTA
225455 AAGGGCGAAA
Statistics
Matches: 127, Mismatches: 8, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
54 4 0.03
55 45 0.35
56 26 0.20
59 1 0.01
61 28 0.22
62 23 0.18
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (55 bp):
GAAAGGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT
Found at i:236126 original size:9 final size:10
Alignment explanation
Indices: 236100--236124 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
236090 AAAACCCAAA
236100 AAAAAACAAC
1 AAAAAACAAC
236110 AAAAAACAAC
1 AAAAAACAAC
236120 AAAAA
1 AAAAA
236125 CAGAATACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAACAAC
Found at i:236331 original size:20 final size:20
Alignment explanation
Indices: 236306--236353 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
236296 GAGGACATTG
236306 GTATTTGCATCATTGCATAT
1 GTATTTGCATCATTGCATAT
236326 GTATTTGCATCATTGCATAT
1 GTATTTGCATCATTGCATAT
*
236346 GCATTTGC
1 GTATTTGC
236354 CCCTTTATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.44
Consensus pattern (20 bp):
GTATTTGCATCATTGCATAT
Found at i:236438 original size:20 final size:20
Alignment explanation
Indices: 236369--236440 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
236359 TATTGATGTT
* *
236369 TGCATTTGTATCATTTCATA
1 TGCATTTGCATCATTTAATA
* ** *
236389 TACATTTGCATTCAGATAACA
1 TGCATTTGCA-TCATTTAATA
236410 TTAGCATTTGCATCATTTAATA
1 -T-GCATTTGCATCATTTAATA
236432 TGCATTTGC
1 TGCATTTGC
236441 CATTTTACTG
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
20 16 0.41
21 7 0.18
22 8 0.21
23 8 0.21
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (20 bp):
TGCATTTGCATCATTTAATA
Found at i:236506 original size:108 final size:108
Alignment explanation
Indices: 236377--236592 Score: 371
Period size: 108 Copynumber: 2.0 Consensus size: 108
236367 TTTGCATTTG
*
236377 TATCATTTCATATACATTTGCATTCAGATAACATTAGCATTTGCATCATTTAATATGCATTTGCC
1 TATCATTTCACATACATTTGCATTCAGATAACATTAGCATTTGCATCATTTAATATGCATTTGCC
236442 AT-TTTACTGATGCTTGTATTTGCATTGTTTCATGCATGTTTTC
66 -TCTTTACTGATGCTTGTATTTGCATTGTTTCATGCATGTTTTC
* * * *
236485 TATCATTTTACATGCATTTGCATTCAGATAACATTGGCATTTGCATCATTTACTATGCATTTGCC
1 TATCATTTCACATACATTTGCATTCAGATAACATTAGCATTTGCATCATTTAATATGCATTTGCC
236550 TCTTTACTGATGCTTGTATTTGCATTGTTTCATGCATGTTTTC
66 TCTTTACTGATGCTTGTATTTGCATTGTTTCATGCATGTTTTC
236593 ATCTACATTT
Statistics
Matches: 102, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
107 1 0.01
108 101 0.99
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (108 bp):
TATCATTTCACATACATTTGCATTCAGATAACATTAGCATTTGCATCATTTAATATGCATTTGCC
TCTTTACTGATGCTTGTATTTGCATTGTTTCATGCATGTTTTC
Found at i:236557 original size:19 final size:21
Alignment explanation
Indices: 236521--236562 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
236511 GATAACATTG
236521 GCATTTGCATCATTTACT-AT
1 GCATTTGCATCATTTACTGAT
*
236541 GCATTTGCCTC-TTTACTGAT
1 GCATTTGCATCATTTACTGAT
236561 GC
1 GC
236563 TTGTATTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (21 bp):
GCATTTGCATCATTTACTGAT
Found at i:237515 original size:33 final size:33
Alignment explanation
Indices: 237461--237525 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
237451 ACTCGATCAA
** *
237461 ATTTTCTCTCATCTGTTTGTATCTATTCAAACT
1 ATTTTCTCTCATCTGACTGTATCTAGTCAAACT
* *
237494 ATTTTCTCTCATTTGACTGTATTTAGTCAAAC
1 ATTTTCTCTCATCTGACTGTATCTAGTCAAAC
237526 ACTTTCCATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.23, C:0.20, G:0.08, T:0.49
Consensus pattern (33 bp):
ATTTTCTCTCATCTGACTGTATCTAGTCAAACT
Found at i:237691 original size:47 final size:47
Alignment explanation
Indices: 237638--238135 Score: 416
Period size: 47 Copynumber: 10.6 Consensus size: 47
237628 TATATTAGCA
* * *
237638 TTAGGACCTGGTCAAACTCTTCTCATCCTCGTTTGACTTTATTGGCG
1 TTAGGACCTGGTCAAACTCTTTTCATCCTCGTTTGACTGTATTGGTG
* ** ** * * *
237685 TAAGGACCTGAACAAACTC-TTTCA-CCATTATTTGACTGCATTAGCG
1 TTAGGACCTGGTCAAACTCTTTTCATCC-TCGTTTGACTGTATTGGTG
* * * * **
237731 TTAGGACCTAGTCAAACTCAAATTT-ATTCTCGTTTGACTATATTGGCA
1 TTAGGACCTGGTCAAACTC--TTTTCATCCTCGTTTGACTGTATTGGTG
* ** * * * * **
237779 TTAAGACCTTATTAAACTCTATTCATCCTTGTTTGACTATATTGGCA
1 TTAGGACCTGGTCAAACTCTTTTCATCCTCGTTTGACTGTATTGGTG
* *
237826 TTAGAACCTGGTCAAACTCTTTTCA-CCATCGTTTGACTGTATTGGTA
1 TTAGGACCTGGTCAAACTCTTTTCATCC-TCGTTTGACTGTATTGGTG
* *
237873 TTAGGACTCT-GTCAAAATCTTTTCATCCTCGTTTGACTCTATTGGTG
1 TTAGGAC-CTGGTCAAACTCTTTTCATCCTCGTTTGACTGTATTGGTG
* ** * *
237920 TTAGGA-CTGGTCAAACTCTTTTCTTCCCTTATTTGACCGTATTAGTG
1 TTAGGACCTGGTCAAACTCTTTTCAT-CCTCGTTTGACTGTATTGGTG
* * * **
237967 TTAGGGCCTGATCAAACTCTTTGT-ACCCTTATTTGACTGTATTGGTG
1 TTAGGACCTGGTCAAACTCTTT-TCATCCTCGTTTGACTGTATTGGTG
* * * * *
238014 TTAGGGCCTAGTCAAACTCTTTTCATCCATCATTTGACTATGTTGGTG
1 TTAGGACCTGGTCAAACTCTTTTCATCC-TCGTTTGACTGTATTGGTG
* * *
238062 TTAGGGCCTGGTCAAACTTTTTTTATTCCTCGTTTGACTGTATTGGTG
1 TTAGGACCTGGTCAAACTCTTTTCA-TCCTCGTTTGACTGTATTGGTG
* *
238110 TTAGGACCTAGTCAAACTCTTCTCAT
1 TTAGGACCTGGTCAAACTCTTTTCAT
238136 TTCGATTTGA
Statistics
Matches: 364, Mismatches: 71, Indels: 32
0.78 0.15 0.07
Matches are distributed among these distances:
45 4 0.01
46 52 0.14
47 179 0.49
48 121 0.33
49 8 0.02
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.40
Consensus pattern (47 bp):
TTAGGACCTGGTCAAACTCTTTTCATCCTCGTTTGACTGTATTGGTG
Found at i:237754 original size:141 final size:140
Alignment explanation
Indices: 237573--238130 Score: 491
Period size: 141 Copynumber: 3.9 Consensus size: 140
237563 CTTTGTCATC
* * *
237573 ATTTGACTGTATTGGCATTAGGACCTAGGCAAATTCAAATTTAC-T-CTCATTTGACTATATTAG
1 ATTTGACTGTATTGGCATTAGGACCTAGTCAAACTC---TTTACATCCTCATTTGACTATATTGG
* * * *
237636 CATTAGGACCTGGTCAAACTCTTCTCATCCTCGTTTGACTTTATTGGCGTAAGGACCTGAACAAA
63 CATTAGGACCTGGTCAAACTCTTTTCATCCTCGTTTGACTGTATTGGCGTTAGGACCTGATCAAA
237701 CTCTTTCACCATT
128 CTCTTTCACCATT
* * * * *
237714 ATTTGACTGCATTAGCGTTAGGACCTAGTCAAACTCAAATTT--ATTCTCGTTTGACTATATTGG
1 ATTTGACTGTATTGGCATTAGGACCTAGTCAAACTC---TTTACATCCTCATTTGACTATATTGG
* ** * * * * * * *
237777 CATTAAGACCTTATTAAACTCTATTCATCCTTGTTTGACTATATTGGCATTAGAACCTGGTCAAA
63 CATTAGGACCTGGTCAAACTCTTTTCATCCTCGTTTGACTGTATTGGCGTTAGGACCTGATCAAA
*
237842 CTCTTTTCACCATC
128 CTC-TTTCACCATT
* * * * * * **
237856 GTTTGACTGTATTGGTATTAGGACTCT-GTCAAAATCTTTTCATCCTCGTTTGACTCTATTGGTG
1 ATTTGACTGTATTGGCATTAGGAC-CTAGTCAAACTCTTTACATCCTCATTTGACTATATTGGCA
* ** * * * *
237920 TTAGGA-CTGGTCAAACTCTTTTCTTCCCTTATTTGACCGTATTAGTGTTAGGGCCTGATCAAAC
65 TTAGGACCTGGTCAAACTCTTTTCAT-CCTCGTTTGACTGTATTGGCGTTAGGACCTGATCAAAC
* *
237984 TCTTTGTACCCTT
129 TCTTT-CACCATT
** * * * **
237997 ATTTGACTGTATTGGTGTTAGGGCCTAGTCAAACTCTTTTCATCCATCATTTGACTATGTTGGTG
1 ATTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTACATCC-TCATTTGACTATATTGGCA
* * * *
238062 TTAGGGCCTGGTCAAACTTTTTTTATTCCTCGTTTGACTGTATTGGTGTTAGGACCT-AGTCAAA
65 TTAGGACCTGGTCAAACTCTTTTCA-TCCTCGTTTGACTGTATTGGCGTTAGGACCTGA-TCAAA
238126 CTCTT
128 CTCTT
238131 CTCATTTCGA
Statistics
Matches: 339, Mismatches: 65, Indels: 24
0.79 0.15 0.06
Matches are distributed among these distances:
139 3 0.01
140 20 0.06
141 205 0.60
142 58 0.17
143 52 0.15
144 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.39
Consensus pattern (140 bp):
ATTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTACATCCTCATTTGACTATATTGGCAT
TAGGACCTGGTCAAACTCTTTTCATCCTCGTTTGACTGTATTGGCGTTAGGACCTGATCAAACTC
TTTCACCATT
Found at i:237935 original size:188 final size:188
Alignment explanation
Indices: 237621--238128 Score: 492
Period size: 188 Copynumber: 2.7 Consensus size: 188
237611 ATTTACTCTC
* * * *
237621 ATTTGACTATATTAGCATTAGGACCTGGTCAAACTCTTCTCATCC-TCGTTTGACTTTATTGGCG
1 ATTTGACTATATTGGCATTAGGACCTGGTCAAACTCTTTTCATCCATCGTTTGACTATATTGGTG
* * ** * *
237685 TAAGGACCTGAACAAACTC-TTTCA-CCATTATTTGACTGC-ATTAGCGTTAGGACCTAGTCAAA
66 TTAGGACCTG-TCAAACTCTTTTCATCC-TCGTTTGACT-CTATTGGTGTTAGGACCTAGTCAAA
* * * * * *
237747 CTCAAATTTATT-CTCGTTTGACTATATTGGCATTAAGACCTTATTAAACTCTATT-CATCCTT
128 CTC--ATTTATTCCTCATTTGACCATATTAGCATTAAGACCTGATCAAACTCT-TTGCACCCTT
* * * *
237809 GTTTGACTATATTGGCATTAGAACCTGGTCAAACTCTTTTCA-CCATCGTTTGACTGTATTGGTA
1 ATTTGACTATATTGGCATTAGGACCTGGTCAAACTCTTTTCATCCATCGTTTGACTATATTGGTG
* *
237873 TTAGGACTCTGTCAAAATCTTTTCATCCTCGTTTGACTCTATTGGTGTTAGGA-CTGGTCAAACT
66 TTAGGAC-CTGTCAAACTCTTTTCATCCTCGTTTGACTCTATTGGTGTTAGGACCTAGTCAAACT
* * * * ** * * *
237937 CTTTTCTTCCCTTATTTGACCGTATTAGTGTTAGGGCCTGATCAAACTCTTTGTACCCTT
130 CATTTATT-CCTCATTTGACCATATTAGCATTAAGACCTGATCAAACTCTTTGCACCCTT
* ** * * * *
237997 ATTTGACTGTATTGGTGTTAGGGCCTAGTCAAACTCTTTTCATCCATCATTTGACTATGTTGGTG
1 ATTTGACTATATTGGCATTAGGACCTGGTCAAACTCTTTTCATCCATCGTTTGACTATATTGGTG
* * * *
238062 TTAGGGCCTGGTCAAACTTTTTTTATTCCTCGTTTGACTGTATTGGTGTTAGGACCTAGTCAAAC
66 TTAGGACCT-GTCAAACTCTTTTCA-TCCTCGTTTGACTCTATTGGTGTTAGGACCTAGTCAAAC
238127 TC
129 TC
238129 TTCTCATTTC
Statistics
Matches: 261, Mismatches: 47, Indels: 21
0.79 0.14 0.06
Matches are distributed among these distances:
186 5 0.02
187 4 0.02
188 149 0.57
189 63 0.24
190 29 0.11
191 11 0.04
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (188 bp):
ATTTGACTATATTGGCATTAGGACCTGGTCAAACTCTTTTCATCCATCGTTTGACTATATTGGTG
TTAGGACCTGTCAAACTCTTTTCATCCTCGTTTGACTCTATTGGTGTTAGGACCTAGTCAAACTC
ATTTATTCCTCATTTGACCATATTAGCATTAAGACCTGATCAAACTCTTTGCACCCTT
Found at i:238254 original size:88 final size:88
Alignment explanation
Indices: 238148--238479 Score: 369
Period size: 88 Copynumber: 3.8 Consensus size: 88
238138 CGATTTGACA
* * * *
238148 TATGGTTACCACCATGGTCAGATTCTTTTCATTTCAATTTAACGTATGGTTATCACCCTAGTTAA
1 TATGGTTACCACCTTGGTCAGATTCTTTTCATTTCAATTTGACGTATGGTTACCACCCTAGTCAA
* *
238213 ATCAGCCTCCTTCTTGTCTAACG
66 ATCAGCCTCATTCCTGTCTAACG
* * **
238236 TATGGTTACTACCTTGGTCAGATTCTTTTTATTTTGATTTGACGTATGGTTACCACCCTAGTCAA
1 TATGGTTACCACCTTGGTCAGATTCTTTTCATTTCAATTTGACGTATGGTTACCACCCTAGTCAA
**
238301 ATCTA-CCTTTTTCCTGTCTAACG
66 ATC-AGCCTCATTCCTGTCTAACG
* ** * * *
238324 TATGGTTACCGCCTTGGTCAGATTCTTTTCATTTTGATTTGATGTATAGTTACCACCCTAATCAA
1 TATGGTTACCACCTTGGTCAGATTCTTTTCATTTCAATTTGACGTATGGTTACCACCCTAGTCAA
* ** * * *
238389 GTTTGTCTCATTCCTGTCTGACA
66 ATCAGCCTCATTCCTGTCTAACG
* * * * * * *
238412 TATGGTCACCACCCTAGTCAAATTCTTTTCATTCCAATTTGACATATGGTTACCACCCTGGTCAA
1 TATGGTTACCACCTTGGTCAGATTCTTTTCATTTCAATTTGACGTATGGTTACCACCCTAGTCAA
238477 ATC
66 ATC
238480 TGCCCCCAAC
Statistics
Matches: 202, Mismatches: 40, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
88 201 1.00
89 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (88 bp):
TATGGTTACCACCTTGGTCAGATTCTTTTCATTTCAATTTGACGTATGGTTACCACCCTAGTCAA
ATCAGCCTCATTCCTGTCTAACG
Found at i:238476 original size:44 final size:44
Alignment explanation
Indices: 238116--238478 Score: 200
Period size: 44 Copynumber: 8.2 Consensus size: 44
238106 GGTGTTAGGA
* * * *
238116 CCTAGTCAAACTCTTCTCATTTCGATTTGACATATGGTTACCAC
1 CCTAGTCAAATTCTTTTCATTCCGATTTGACGTATGGTTACCAC
* * * * * * *
238160 CATGGTCAGATTCTTTTCATTTCAATTTAACGTATGGTTATCAC
1 CCTAGTCAAATTCTTTTCATTCCGATTTGACGTATGGTTACCAC
* *** * * * * *
238204 CCTAGTTAAA-TCAGCCTCCTTCTTG-TCTAACGTATGGTTACTAC
1 CCTAGTCAAATTC-TTTTCATTC-CGATTTGACGTATGGTTACCAC
* * * * **
238248 CTTGGTCAGATTCTTTTTATTTTGATTTGACGTATGGTTACCAC
1 CCTAGTCAAATTCTTTTCATTCCGATTTGACGTATGGTTACCAC
* * * *
238292 CCTAGTCAAATCTACCTTT--TTCCTG-TCTAACGTATGGTTACCGC
1 CCTAGTCAAAT-T-CTTTTCATTCC-GATTTGACGTATGGTTACCAC
* * * ** * *
238336 CTTGGTCAGATTCTTTTCATTTTGATTTGATGTATAGTTACCAC
1 CCTAGTCAAATTCTTTTCATTCCGATTTGACGTATGGTTACCAC
* * * * * *
238380 CCTAATCAAGTT-TGTCTCATTCCTG-TCTGACATATGGTCACCAC
1 CCTAGTCAAATTCT-TTTCATTCC-GATTTGACGTATGGTTACCAC
* *
238424 CCTAGTCAAATTCTTTTCATTCCAATTTGACATATGGTTACCAC
1 CCTAGTCAAATTCTTTTCATTCCGATTTGACGTATGGTTACCAC
*
238468 CCTGGTCAAAT
1 CCTAGTCAAAT
238479 CTGCCCCCAA
Statistics
Matches: 229, Mismatches: 76, Indels: 28
0.69 0.23 0.08
Matches are distributed among these distances:
42 4 0.02
43 7 0.03
44 208 0.91
45 6 0.03
46 4 0.02
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.40
Consensus pattern (44 bp):
CCTAGTCAAATTCTTTTCATTCCGATTTGACGTATGGTTACCAC
Found at i:238722 original size:42 final size:42
Alignment explanation
Indices: 238663--238876 Score: 130
Period size: 42 Copynumber: 5.0 Consensus size: 42
238653 TCTGATACCT
* * *
238663 TTTATCCTTTGTCTACCCGTCGGCTCAAGCTCAGGAGACTTC
1 TTTATCTTTTGTCTGCCCGTCAGCTCAAGCTCAGGAGACTTC
* * * ** * * * * *
238705 TTTATCTTTTGTTTACCCATTGGTTCAAAC-CCGAGAAACTTT
1 TTTATCTTTTGTCTGCCCGTCAGCTCAAGCTCAG-GAGACTTC
* * * *
238747 TTTATCCTTTGTCTGCCCGTCATCTCAAGCCTAAGG-GACTTTT
1 TTTATCTTTTGTCTGCCCGTCAGCTCAAG-CTCAGGAGAC-TTC
* **
238790 TTTATCTTTTTGTCTGCCTGTCTA-CTC-AGACTTGGGAGACTTC
1 TTTATC-TTTTGTCTGCCCGTC-AGCTCAAG-CTCAGGAGACTTC
* * * *
238833 TTTATCTTTTGTTTGCTCGTCAGCTCAGGCTCGGGAGACTTC
1 TTTATCTTTTGTCTGCCCGTCAGCTCAAGCTCAGGAGACTTC
238875 TT
1 TT
238877 CACCTCTTTG
Statistics
Matches: 131, Mismatches: 32, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
41 3 0.02
42 81 0.62
43 26 0.20
44 20 0.15
45 1 0.01
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (42 bp):
TTTATCTTTTGTCTGCCCGTCAGCTCAAGCTCAGGAGACTTC
Found at i:239834 original size:20 final size:19
Alignment explanation
Indices: 239809--239878 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 19
239799 TCCTAGAAAA
239809 TATCGATACATATCCAGATG
1 TATCGATACATATCCA-ATG
* * *
239829 TATCGATACATGTTCATTG
1 TATCGATACATATCCAATG
239848 TATCGATACATA-CTCAATTG
1 TATCGATACATATC-CAA-TG
239868 TATCGATACAT
1 TATCGATACAT
239879 GAAACTGGCA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
19 15 0.36
20 27 0.64
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.36
Consensus pattern (19 bp):
TATCGATACATATCCAATG
Found at i:239851 original size:19 final size:20
Alignment explanation
Indices: 239827--239879 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
239817 CATATCCAGA
*
239827 TGTATCGATACATGTTC-AT
1 TGTATCGATACATGCTCAAT
*
239846 TGTATCGATACATACTCAAT
1 TGTATCGATACATGCTCAAT
239866 TGTATCGATACATG
1 TGTATCGATACATG
239880 AAACTGGCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:249004 original size:20 final size:19
Alignment explanation
Indices: 248960--249013 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
248950 CTGCCAGGAA
248960 ATGTATCGATACATTATTC
1 ATGTATCGATACATTATTC
248979 AATGTATCGATACATTGATCTC
1 -ATGTATCGATACATT-AT-TC
*
249001 -TGTATTGATACAT
1 ATGTATCGATACAT
249014 CTGGGAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 27 0.87
21 2 0.06
22 2 0.06
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (19 bp):
ATGTATCGATACATTATTC
Found at i:256066 original size:29 final size:31
Alignment explanation
Indices: 256009--256076 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 31
255999 TCAAAAGTAC
*
256009 AAACAAAAAAAAAACATCACAAAAAAAC-AA
1 AAACAAAAAAAAAACAGCACAAAAAAACAAA
* *
256039 AAACAAAAAAAAAACAGCAC-ACACAACAAA
1 AAACAAAAAAAAAACAGCACAAAAAAACAAA
256069 AAACAAAA
1 AAACAAAA
256077 GAGTGCAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 5 0.15
30 29 0.85
ACGTcount: A:0.78, C:0.19, G:0.01, T:0.01
Consensus pattern (31 bp):
AAACAAAAAAAAAACAGCACAAAAAAACAAA
Found at i:257410 original size:31 final size:31
Alignment explanation
Indices: 257368--257744 Score: 421
Period size: 31 Copynumber: 12.1 Consensus size: 31
257358 TTCAAATCTT
257368 TTTTC-TCAAAGTCCACGACTCAGTGGCATC
1 TTTTCTTCAAAGTCCACGACTCAGTGGCATC
* *
257398 TTTTCTTCAAAGTCCATGACTCAGTGGCATTTT
1 TTTTCTTCAAAGTCCACGACTCAGTGGCA--TC
*
257431 TTTTCTTCAAAGTCCACGACTTAGTGGCATC
1 TTTTCTTCAAAGTCCACGACTCAGTGGCATC
* *
257462 TTTTCTTCAAAGTCCACAACTCAGTGGCATTT
1 TTTTCTTCAAAGTCCACGACTCAGTGGCA-TC
* *
257494 TTTTCTTCAAAGTCCATGACTCAATGGCATC
1 TTTTCTTCAAAGTCCACGACTCAGTGGCATC
* *
257525 TTATTC--CAAAGTCCATGACTCCGTGGCATC
1 TT-TTCTTCAAAGTCCACGACTCAGTGGCATC
* * *
257555 TTTTCTTCCAAA-TCCATGACCCAGTGGCATTT
1 TTTTCTT-CAAAGTCCACGACTCAGTGGCA-TC
*
257587 TTTTCTTCAAAGTCCACGGCTCAGTGGCATC
1 TTTTCTTCAAAGTCCACGACTCAGTGGCATC
257618 TTGTTC--CAAAGTCCACGACTCAGTGGCATC
1 TT-TTCTTCAAAGTCCACGACTCAGTGGCATC
* * * *
257648 TTGT-TTCTAAGTCCACGGCTTAGTGGCATC
1 TTTTCTTCAAAGTCCACGACTCAGTGGCATC
*
257678 TTTTCTTCAAAGTCCATGACTCAGTGGCAATC
1 TTTTCTTCAAAGTCCACGACTCAGTGGC-ATC
* *
257710 TCTT-TTCAAAGTCCACAACTCCA-TGGCACTC
1 TTTTCTTCAAAGTCCACGACT-CAGTGGCA-TC
257741 TTTT
1 TTTT
257745 TCCTTTTAAG
Statistics
Matches: 295, Mismatches: 35, Indels: 33
0.81 0.10 0.09
Matches are distributed among these distances:
29 4 0.01
30 79 0.27
31 117 0.40
32 67 0.23
33 28 0.09
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.35
Consensus pattern (31 bp):
TTTTCTTCAAAGTCCACGACTCAGTGGCATC
Found at i:257760 original size:34 final size:34
Alignment explanation
Indices: 257722--258545 Score: 747
Period size: 34 Copynumber: 26.2 Consensus size: 34
257712 TTTTCAAAGT
*
257722 CCACAACTCCATGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
257756 CCACAATTTCGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
257790 CCATAACTCCGTGGCA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
257817 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
257851 CCACAACTCCATGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * ** *
257885 CTACAACTCCATGGCACTCTGCTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
257919 CCACAACTCCATGGCA-------TCCTTTTAAAC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
257946 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
257980 CCACAACTCCGTGGCACTCTTTTTTCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
258014 CCATAACTCCGTGGCAC-C----T--TTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
258041 CCATAACTCCGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
258075 CCATAACTCCGTGGCACTCTTCTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
258109 CCACAACTCCGTGGCA-------TCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
258136 CTACAACTCTGTGGCACTC-TTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
258169 CCACAACTCCATGGCA-TTTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
258202 CCACAACTCCGTGGCA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
258229 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* *
258263 TCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
258297 CCACAACTCCGTGGCA--C-----CCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
258324 CCACAACTCTGTGGCA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* ** * * *
258351 CCACAGCTCAATAGCACTCTTTTTCTTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
258385 CCATAACTCCGTAGCA--C-----CCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
**
258412 CCACAACTCCGTGGCAC-CTTTTTTTTTTTAAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTT-AAGC
* *
258446 CCACAACTCCGTGGTACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
* * *
258480 CCACAACTTCGTGGCA--C-----CCTTGTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
*
258507 CCACAACTCCGTGGCA-TCTTTCTCCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
258540 CCACAA
1 CCACAA
258546 GTTAGTGGCA
Statistics
Matches: 664, Mismatches: 70, Indels: 113
0.78 0.08 0.13
Matches are distributed among these distances:
27 214 0.32
28 3 0.00
29 4 0.01
32 6 0.01
33 71 0.11
34 356 0.54
35 10 0.02
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.35
Consensus pattern (34 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGC
Found at i:257813 original size:61 final size:61
Alignment explanation
Indices: 257746--258562 Score: 560
Period size: 61 Copynumber: 13.1 Consensus size: 61
257736 CACTCTTTTT
* * * *
257746 CCTTTTAAGCCCACAATTTCGTGGCACTCTTTTTCCTTTTAAGTCCATAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC
* *
257807 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCATGGCACTC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA--C
* * ** * *
257870 TTTTTCCTTTTAAGCCTACAACTCCATGGCACTCTGCTTCCTTTTAAGTCCACAACTCCATGGCA
1 -----CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
*
257935 T
61 C
*
257936 CCTTTTAAACCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC
* * *
257997 TCTTTTTTCTTTTAAGTCCATAACTCCGTGGCAC-C----T--TTTTAAGCCCATAACTCCGTGG
1 -C------CTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGG
258055 CACTC
59 CA--C
* * *
258060 TTTTTCCTTTTAAGCCCATAACTCCGTGGCACTCTTCTTCCTTTTAAGTCCACAACTCCGTGGCA
1 -----CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
*
258125 T
61 C
* * *
258126 CCTTTTAAGCCTACAACTCTGTGGCACTC-TTTTCCTTTTAAGCCCACAACTCCATGGCATTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA-----
*
258190 TT
61 -C
*
258192 CCTTTTAAGTCCACAACTCCGTGGCA--C-----CCTTTTAAGCCCACAACTCCGTGGCACTC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA--C
* *
258248 TTTTTCCTTTTAAGCTCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
1 -----CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
258313 C
61 C
* * * ** *
258314 CCTTTTAAGTCCACAACTCTGTGGCA--C-----CCTTTTAAGCCCACAGCTCAATAGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC
* * * *
258368 TCTTTTTCTTTTTAAGTCCATAACTCCGTAGCA--C-----CCTTTTAAGTCCACAACTCCGTGG
1 -C-----C-TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGG
258426 CAC
59 CAC
* * * *
258429 CTTTTTTTTTTTAAAGCCCACAACTCCGTGGTACTCTTTTTCCTTTTAAGTCCACAACTTCGTGG
1 C------CTTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGG
258494 CAC
59 CAC
* * * * **
258497 CCTTGTAAGTCCACAACTCCGTGGCA-TCTTTCTCCTTTTAAGCCCACAAGTTAGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC
258557 CCTTTT
1 CCTTTT
258563 CAAAAGCCCA
Statistics
Matches: 620, Mismatches: 75, Indels: 123
0.76 0.09 0.15
Matches are distributed among these distances:
54 22 0.04
55 1 0.00
56 1 0.00
59 1 0.00
60 93 0.15
61 311 0.50
62 5 0.01
63 5 0.01
64 1 0.00
66 26 0.04
67 3 0.00
68 151 0.24
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (61 bp):
CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:257834 original size:95 final size:91
Alignment explanation
Indices: 257745--258545 Score: 758
Period size: 95 Copynumber: 8.6 Consensus size: 91
257735 GCACTCTTTT
* * * *
257745 TCCTTTTAAGCCCACAATTTCGTGGCACTCTTTTTCCTTTTAAGTCCATAACTCCGTGGCA-C-C
1 TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCATCTC
* *
257808 CTTTTAAGCCCACAACTCTGTGGCACTC
66 CTTTTAAGTCCACAACTCCGTGGCA--C
* * *
257836 TTTTTCCTTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGCCTACAACTCCATGGCA
1 ----TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA
*
257901 CTCTGCTTCCTTTTAAGTCCACAACTCCATGGCA-
62 ---T-C-TCCTTTTAAGTCCACAACTCCGTGGCAC
*
257935 TCCTTTTAAACCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCACTCT
1 TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA-TC-
* *
258000 TTTTTCTTTTAAGTCCATAACTCCGTGGCAC
64 ---TCCTTTTAAGTCCACAACTCCGTGGCAC
* * *
258031 -CTTTTTAAGCCCATAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCATAACTCCGTGGCACTCT
1 TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA----
258095 TCTTCCTTTTAAGTCCACAACTCCGTGGCA-
62 TC-TCCTTTTAAGTCCACAACTCCGTGGCAC
* * *
258125 TCCTTTTAAGCCTACAACTCTGTGGCACTC-TTTTCCTTTTAAGCCCACAACTCCATGGCATTTT
1 TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA----
*
258189 TTTCCTTTTAAGTCCACAACTCCGTGGCAC
62 TCTCCTTTTAAGTCCACAACTCCGTGGCAC
*
258219 -CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCTCACAACTCCGTGGCACTCT
1 TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA-TC-
258283 TTTTCCTTTTAAGTCCACAACTCCGTGGCAC
64 ---TCCTTTTAAGTCCACAACTCCGTGGCAC
* * * ** *
258314 -CCTTTTAAGTCCACAACTCTGTGGCA--C-----CCTTTTAAGCCCACAGCTCAATAGCACTCT
1 TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCA-TC-
* * *
258371 TTTTCTTTTTAAGTCCATAACTCCGTAGCAC
64 ---TCCTTTTAAGTCCACAACTCCGTGGCAC
* ** *
258402 -CCTTTTAAGTCCACAACTCCGTGGCAC-CTTTTTTTTTTTAAAGCCCACAACTCCGTGGTACTC
1 TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT-AAGCCCACAACTCCGTGGCA-TC
*
258465 TTTTTCCTTTTAAGTCCACAACTTCGTGGCAC
64 ----TCCTTTTAAGTCCACAACTCCGTGGCAC
* * *
258497 -CCTTGTAAGTCCACAACTCCGTGGCA-TCTTTCTCCTTTTAAGCCCACAA
1 TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAA
258546 GTTAGTGGCA
Statistics
Matches: 612, Mismatches: 65, Indels: 59
0.83 0.09 0.08
Matches are distributed among these distances:
88 78 0.13
89 1 0.00
91 1 0.00
92 1 0.00
93 57 0.09
94 73 0.12
95 375 0.61
98 2 0.00
100 1 0.00
102 23 0.04
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (91 bp):
TCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCGTGGCATCTC
CTTTTAAGTCCACAACTCCGTGGCAC
Found at i:258034 original size:26 final size:27
Alignment explanation
Indices: 258004--258251 Score: 113
Period size: 27 Copynumber: 8.2 Consensus size: 27
257994 CACTCTTTTT
*
258004 TCTTTTAAGTCCATAACTCCGTGGCAC
1 TCTTTTAAGCCCATAACTCCGTGGCAC
258031 -CTTTTTAAGCCCATAACTCCGTGGCACTC
1 TC-TTTTAAGCCCATAACTCCGTGGCA--C
258060 TTTTTCCTTTTAAGCCCATAACTCCGTGGCACTCTTC
1 ----T-CTTTTAAGCCCATAACTCCGTGGCA-----C
* *
258097 TTCCTTTTAAGTCCACAACTCCGTGGCA-
1 -T-CTTTTAAGCCCATAACTCCGTGGCAC
* * *
258125 TCCTTTTAAGCCTACAACTCTGTGGCACTC
1 T-CTTTTAAGCCCATAACTCCGTGGCA--C
* * *
258155 TTTTCCTTTTAAGCCCACAACTCCATGGCATTTTTT
1 ---T-CTTTTAAGCCCATAACTCCGTGGCA-----C
* *
258191 TCCTTTTAAGTCCACAACTCCGTGGCAC
1 T-CTTTTAAGCCCATAACTCCGTGGCAC
* *
258219 CCTTTTAAGCCCACAACTCCGTGGCAC
1 TCTTTTAAGCCCATAACTCCGTGGCAC
258246 TCTTTT
1 TCTTTT
258252 TCCTTTTAAG
Statistics
Matches: 182, Mismatches: 18, Indels: 42
0.75 0.07 0.17
Matches are distributed among these distances:
26 1 0.01
27 77 0.42
29 1 0.01
33 49 0.27
34 50 0.27
35 1 0.01
36 1 0.01
37 2 0.01
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (27 bp):
TCTTTTAAGCCCATAACTCCGTGGCAC
Found at i:258432 original size:26 final size:27
Alignment explanation
Indices: 258377--258434 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
258367 CTCTTTTTCT
*
258377 TTTTAAGTCCATAACTCCGTAGCACCC
1 TTTTAAGTCCACAACTCCGTAGCACCC
* *
258404 TTTTAAGTCCACAACTCCGTGGCACCT
1 TTTTAAGTCCACAACTCCGTAGCACCC
258431 TTTT
1 TTTT
258435 TTTTTTAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.34
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTAGCACCC
Found at i:258544 original size:60 final size:61
Alignment explanation
Indices: 258446--258560 Score: 178
Period size: 60 Copynumber: 1.9 Consensus size: 61
258436 TTTTTAAAGC
* * * *
258446 CCACAACTCCGTGGTACTCTTTTTCCTTTTAAGTCCACAACTTCGTGGCACCCTTGTAAGT
1 CCACAACTCCGTGGCACTCTTTCTCCTTTTAAGCCCACAACTTAGTGGCACCCTTGTAAGT
*
258507 CCACAACTCCGTGGCA-TCTTTCTCCTTTTAAGCCCACAAGTTAGTGGCACCCTT
1 CCACAACTCCGTGGCACTCTTTCTCCTTTTAAGCCCACAACTTAGTGGCACCCTT
258561 TTCAAAAGCC
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
60 34 0.69
61 15 0.31
ACGTcount: A:0.20, C:0.33, G:0.15, T:0.32
Consensus pattern (61 bp):
CCACAACTCCGTGGCACTCTTTCTCCTTTTAAGCCCACAACTTAGTGGCACCCTTGTAAGT
Found at i:258572 original size:30 final size:29
Alignment explanation
Indices: 258536--258631 Score: 115
Period size: 28 Copynumber: 3.3 Consensus size: 29
258526 TTCTCCTTTT
258536 AAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTTAGTGGCACCC-TTTCAA
* * *
258566 AAGCCCACAAGTCAATGGCAACC-TTCAA
1 AAGCCCACAAGTTAGTGGCACCCTTTCAA
* *
258594 AAGCACACAAGTTGGT-GCAACCCTTTCAA
1 AAGCCCACAAGTTAGTGGC-ACCCTTTCAA
258623 AAGCCCACA
1 AAGCCCACA
258632 CAAGTTGGTG
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
27 2 0.04
28 20 0.36
29 13 0.24
30 20 0.36
ACGTcount: A:0.35, C:0.31, G:0.16, T:0.18
Consensus pattern (29 bp):
AAGCCCACAAGTTAGTGGCACCCTTTCAA
Found at i:258730 original size:49 final size:49
Alignment explanation
Indices: 258648--259450 Score: 501
Period size: 49 Copynumber: 17.0 Consensus size: 49
258638 GGTGGCGTCT
* * * * *
258648 TCTTCTAAGTCCAATATCGCTGTCCTTGAATCAGCATATTGGCACCTTTA
1 TCTT-TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
258698 TCTTTAAGACCAATGTAGCTAGCCTTGAATCAGCACATTGGCATCTTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * *
258747 TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGTCACCTT-G
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
258795 TCTCTATGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * *
258838 ----TAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * *
258883 TATTTAAGACCAATGTTGTTGGCCTTGAATCAACACATTGG------CA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * *
258926 -C---AAGCCCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
258971 TATTTAAGACCAATGTCGCTGGCCTTGAATTAGCACATTGG------CA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * *
259014 -C---AAGCCCAATATCGCTAGCCTTGAATCAGCAGATTGGCACCTTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* *
259059 -CATTTAAGACCAATGTCGCTAGCCTTGAATCAGCACATT---A---GCA
1 TC-TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
259102 -C---AAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * *
259147 TCTTTAAGACCAATGTCACCGGCCTTAAATCAGCACATTGGCACCTTAACCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT---CA
* * * * *
259199 TCTTTAAGTCCAATGTCGCCGGCCTTAAATCAGCACATTGACATCTTCA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
* * * * *
259248 TCTTTAAG-CCTGATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACA
1 TCTTTAAGACC-AATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTT--CA
* * * *
259300 TTCCTT-A-ACCTAATGTCGTTGGCCTTGAATCAGCATATTGGCATTCTTCTCA
1 -TCTTTAAGACC-AATGTCGCTGGCCTTGAATCAGCACATTGGCA--CCT-TCA
* ** * ** * * * *
259352 TCTTCAATTCTAATGTCATTGACCGTGAATCAGCACATTGACATTCTTTACA
1 TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--CCTT-CA
* * * *
259404 TCTTTAAGCCCAATATCACTGGTCC-TGAATCAGCATATTGGCACCTT
1 TCTTTAAGACCAATGTCGCTGG-CCTTGAATCAGCACATTGGCACCTT
259451 TATCACTCTT
Statistics
Matches: 594, Mismatches: 103, Indels: 112
0.73 0.13 0.14
Matches are distributed among these distances:
39 121 0.20
42 1 0.00
43 7 0.01
45 9 0.02
46 2 0.00
48 38 0.06
49 242 0.41
50 9 0.02
51 4 0.01
52 149 0.25
53 11 0.02
54 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (49 bp):
TCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCA
Found at i:258858 original size:39 final size:39
Alignment explanation
Indices: 258804--259140 Score: 188
Period size: 39 Copynumber: 7.9 Consensus size: 39
258794 GTCTCTATGA
*
258804 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGC
* * *
258843 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATATTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGG------C--A--TAAGC
* * * * *
258892 CCAATGTTGTTGGCCTTGAATCAACACATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGC
* * * *
258931 CCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTCATATTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGG------C--A--TAAGC
* * *
258980 CCAATGTCGCTGGCCTTGAATTAGCACATTGGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGC
* * *
259019 CCAATATCGCTAGCCTTGAATCAGCAGATTGGCACCTTCACATTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGG--------CA--TAAGC
* * * *
259068 CCAATGTCGCTAGCCTTGAATCAGCACATTAGCACAAGC
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGC
*
259107 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 CCAATATCGCTGGCCTTGAATCAGCACATTGGCA
259141 CCTTCATCTT
Statistics
Matches: 227, Mismatches: 41, Indels: 60
0.69 0.12 0.18
Matches are distributed among these distances:
39 121 0.53
41 4 0.02
43 2 0.01
45 2 0.01
47 4 0.02
49 94 0.41
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (39 bp):
CCAATATCGCTGGCCTTGAATCAGCACATTGGCATAAGC
Found at i:258931 original size:88 final size:88
Alignment explanation
Indices: 258756--259190 Score: 665
Period size: 88 Copynumber: 5.0 Consensus size: 88
258746 ATCTTTAAGA
* * * * *
258756 CCAATATCGCTGGCCTTGAATCAGCATATTGTCACCTT-GTCTCTATGACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATATTTAAGACCAATGTCGCTGGCCT
*
258820 TGAATCAGCACATTGGCATAAGC
66 TGAATCAGCACATTGGCACAAGC
* * *
258843 CCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATATTTAAGACCAATGTTGTTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATATTTAAGACCAATGTCGCTGGCCT
*
258908 TGAATCAACACATTGGCACAAGC
66 TGAATCAGCACATTGGCACAAGC
* *
258931 CCAATATCACTAGCCTTGAATCAGCATATTGGCACCTTCATATTTAAGACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATATTTAAGACCAATGTCGCTGGCCT
*
258996 TGAATTAGCACATTGGCACAAGC
66 TGAATCAGCACATTGGCACAAGC
* * * *
259019 CCAATATCGCTAGCCTTGAATCAGCAGATTGGCACCTTCACATTTAAGACCAATGTCGCTAGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATATTTAAGACCAATGTCGCTGGCCT
*
259084 TGAATCAGCACATTAGCACAAGC
66 TGAATCAGCACATTGGCACAAGC
* * *
259107 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCACCGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATATTTAAGACCAATGTCGCTGGCCT
*
259172 TAAATCAGCACATTGGCAC
66 TGAATCAGCACATTGGCAC
259191 CTTAACCATC
Statistics
Matches: 315, Mismatches: 32, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
87 36 0.11
88 279 0.89
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (88 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATATTTAAGACCAATGTCGCTGGCCT
TGAATCAGCACATTGGCACAAGC
Found at i:259315 original size:101 final size:100
Alignment explanation
Indices: 259107--259348 Score: 265
Period size: 101 Copynumber: 2.4 Consensus size: 100
259097 TAGCACAAGC
* * *
259107 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCACCGGCCT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGACCAATATCACCGGCCT
*
259172 TAAATCAGCACATTGGCACCTTAACCATCTTTAAG
66 TAAATCAGCACATTGGCACCTTAACCATCCTTAAG
* * * * * ***
259207 TCCAATGTCGCCGGCCTTAAATCAGCACATTGACATCTTCATCTTTAAG-CCTGATATCGTTGGC
1 -CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGACC-AATATCACCGGC
* * *
259271 CTTGAATCAGCATATTGGCATCTTTAA-CATTCCTTAA-
64 CTTAAATCAGCACATTGGCA-CCTTAACCA-TCCTTAAG
*
259308 CCTAATGTCGTTGGCCTTGAATCAGCATATTGGCATTCTTC
1 CC-AATGTCGCTGGCCTTGAATCAGCATATTGGCA-TCTTC
259349 TCATCTTCAA
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
100 4 0.03
101 96 0.83
102 16 0.14
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (100 bp):
CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGACCAATATCACCGGCCT
TAAATCAGCACATTGGCACCTTAACCATCCTTAAG
Found at i:259328 original size:52 final size:49
Alignment explanation
Indices: 259107--259450 Score: 241
Period size: 52 Copynumber: 6.8 Consensus size: 49
259097 TAGCACAAGC
*
259107 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCTTCATCTTTAAG
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCCTTCATCTTTAAG
* * * *
259155 ACCAATGTCACCGGCCTTAAATCAGCACATTGGCA-CCTTAACCATCTTTAAG
1 -CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCCTT---CATCTTTAAG
* * * *
259207 TCCAATGTCGCCGGCCTTAAATCAGCACATTGACAT-CTTCATCTTTAAG
1 -CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCCTTCATCTTTAAG
* * * * *
259256 CCTGATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTTAA-
1 CC-AATGTCGCTGGCCTTGAATCAGCATATTGGCATCCTT--CA-TCTTTAAG
* * * *
259308 CCTAATGTCGTTGGCCTTGAATCAGCATATTGGCATTCTTCTCATCTTCAATT
1 CC-AATGTCGCTGGCCTTGAATCAGCATATTGGCA-TCCT-TCATCTTTAA-G
* ** * * * * *
259361 CTAATGTCATTGACCGTGAATCAGCACATTGACATTCTTTACATCTTTAAG
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-TCCTT-CATCTTTAAG
* *
259412 CCCAATATCACTGGTCC-TGAATCAGCATATTGGCA-CCTT
1 -CCAATGTCGCTGG-CCTTGAATCAGCATATTGGCATCCTT
259451 TATCACTCTT
Statistics
Matches: 243, Mismatches: 36, Indels: 31
0.78 0.12 0.10
Matches are distributed among these distances:
48 2 0.01
49 69 0.28
50 5 0.02
51 6 0.02
52 147 0.60
53 13 0.05
54 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (49 bp):
CCAATGTCGCTGGCCTTGAATCAGCATATTGGCATCCTTCATCTTTAAG
Found at i:261124 original size:20 final size:20
Alignment explanation
Indices: 261077--261124 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
261067 GTTAACAACC
* **
261077 CATGATTCATGCATTTTGAG
1 CATGTTTCATGCATTTACAG
261097 CTATGTTTCATGCATTTACAG
1 C-ATGTTTCATGCATTTACAG
261118 CATGTTT
1 CATGTTT
261125 AGCACCTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.44
Consensus pattern (20 bp):
CATGTTTCATGCATTTACAG
Found at i:263363 original size:19 final size:20
Alignment explanation
Indices: 263341--263385 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
263331 CTTTGTACCG
*
263341 ATACATGCTC-ATTGTATCA
1 ATACATACTCAATTGTATCA
*
263360 ATACATACTCAATTGTATCG
1 ATACATACTCAATTGTATCA
263380 ATACAT
1 ATACAT
263386 TAAACTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (20 bp):
ATACATACTCAATTGTATCA
Found at i:265514 original size:13 final size:12
Alignment explanation
Indices: 265485--265539 Score: 60
Period size: 12 Copynumber: 4.6 Consensus size: 12
265475 CTCTTGGCTA
265485 AAGAAAAAAA-G
1 AAGAAAAAAAGG
265496 AGAGAAAGAAAAGG
1 A-AGAAA-AAAAGG
265510 AAGAAAAAAAGG
1 AAGAAAAAAAGG
* *
265522 AA-AGAAAAAGA
1 AAGAAAAAAAGG
265533 AAGAAAA
1 AAGAAAA
265540 GAAAAACTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
11 10 0.27
12 16 0.43
13 9 0.24
14 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAAGG
Found at i:265524 original size:22 final size:25
Alignment explanation
Indices: 265484--265539 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 25
265474 GCTCTTGGCT
265484 AAAGAAAAAAAGAGAGAAAG-AAAAG
1 AAAG-AAAAAAGAGAGAAAGAAAAAG
*
265509 GAAGAAAAAA-AG-GAAAGAAAAAG
1 AAAGAAAAAAGAGAGAAAGAAAAAG
265532 AAAGAAAA
1 AAAGAAAA
265540 GAAAAACTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 5 0.18
23 14 0.50
24 6 0.21
25 3 0.11
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (25 bp):
AAAGAAAAAAGAGAGAAAGAAAAAG
Found at i:265541 original size:28 final size:25
Alignment explanation
Indices: 265484--265545 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
265474 GCTCTTGGCT
* *
265484 AAAGAAAAAAAGAGAGAAAGAAAAG
1 AAAGAAAAAAAGAAAGAAAAAAAAG
*
265509 GAAGAAAAAAAGGAAAGAAAAAGAAAG
1 AAAGAAAAAAA-GAAAGAAAAA-AAAG
265536 AAAAGAAAAA
1 -AAAGAAAAA
265546 CTAGGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 10 0.33
26 8 0.27
27 4 0.13
28 8 0.27
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (25 bp):
AAAGAAAAAAAGAAAGAAAAAAAAG
Found at i:266569 original size:168 final size:165
Alignment explanation
Indices: 266125--266569 Score: 515
Period size: 166 Copynumber: 2.7 Consensus size: 165
266115 GTGGTAAAAT
* * * * *
266125 TAAATATTAATCA-TTTTTCAATCTTTTATATTCTTATAGGGGTCCATCGGAGTATAAAAGATTT
1 TAAATATTAATTATTTTTTTAATCTTTTATATTCCTATAGGGGTCCGTAGGAGTATAAAAGATTT
* * *
266189 CAAAAACTTTTCATATCTTTATGGGCTTTCATTAAGGTACGAAATGGTATTTTCCAAATAAACAA
66 CAAAAACTTTTCATATCTTT-TGGGCATTCATTAAGATACGAAATGATATTTTCCAAATAAACAA
**
266254 ATAAATTAAATTAAATTAACACTTTCATAATTGAAA
130 ATAAATTAAATTAAATTAACACTTTCATAATCCAAA
*
266290 TAAATATTAATTATTTTTTTAATCTTTTATATTCCTATAAGGGTCCGTAGGTA-TATAAAAGATT
1 TAAATATTAATTATTTTTTTAATCTTTTATATTCCTATAGGGGTCCGTAGG-AGTATAAAAGATT
* * * * ***
266354 TCAAAAACTTTTTATATCTTTTTGGGCATCCATTAAAATATGAAATGATATTTT-TTGAT-AACA
65 TCAAAAACTTTTCATATC-TTTTGGGCATTCATTAAGATACGAAATGATATTTTCCAAATAAACA
266417 AATAAAATTAAATTAAATTAACACTTTCATAA-CCAAGA
129 AAT-AAATTAAATTAAATTAACACTTTCATAATCCAA-A
* * * *
266455 TAAATTTTAAATCT-TTCTTTTTGAATCTTTTATATTCCTATGGGGGTTCGTAGGGGTATAAAAG
1 TAAATATT-AAT-TATT-TTTTT-AATCTTTTATATTCCTATAGGGGTCCGTAGGAGTATAAAAG
* * ** *
266519 ATTTGAAAAACTTTTCGTATCTTTTCAGAATTCTATTAAGATACGAAATGA
62 ATTTCAAAAACTTTTCATATCTTTTGGGCATTC-ATTAAGATACGAAATGA
266570 CTTTTTGTAA
Statistics
Matches: 237, Mismatches: 32, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
164 9 0.04
165 50 0.21
166 91 0.38
167 18 0.08
168 69 0.29
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (165 bp):
TAAATATTAATTATTTTTTTAATCTTTTATATTCCTATAGGGGTCCGTAGGAGTATAAAAGATTT
CAAAAACTTTTCATATCTTTTGGGCATTCATTAAGATACGAAATGATATTTTCCAAATAAACAAA
TAAATTAAATTAAATTAACACTTTCATAATCCAAA
Found at i:267098 original size:154 final size:153
Alignment explanation
Indices: 266813--267348 Score: 487
Period size: 153 Copynumber: 3.5 Consensus size: 153
266803 TCACATCCAT
* * * * *
266813 ATCTTTTTTAAGTCCTTTCA-TGATACCAGGTACTTTTACGTCGAAGAAATCCCCT-AGGAGCAT
1 ATCTTTTTTAAGTCCTTT-AGGGATATCAGGTACTTCTATGTCGAAGATATCCCCTAAGG-GCAT
* * * * * *
266876 TTTTATAATTTTGTAGAATCGAGTCCTAAGTTGTCACCGAGTCTGCTTTTATGCCGAAA-GTGGG
64 TTTTGTAATTTTTTAGAACCGAGTCTTAAGTTGTCACCGAGTCTGCTTTTATG-CAAAAGGTGGA
*
266940 TATTTAGTATAGGTTCATCCCATACAT
128 TATTTAG-ATAGGTTCATCCCATACAA
* * * * * * *
266967 ATCTTTTTCAAGTCCTTTAGGGATA-CGGGGTATTTTTATGTTGAAGGTATCCCCTAGGGGCATT
1 ATCTTTTTTAAGTCCTTTAGGGATATC-AGGTACTTCTATGTCGAAGATATCCCCTAAGGGCATT
* * * * * *
267031 TTTGTAATTTTTTAAAACCAAGTCTTAAGTTGTCATCAATTCCGCTTTTATGCAAAAGGTGGATA
65 TTTGTAATTTTTTAGAACCGAGTCTTAAGTTGTCACCGAGTCTGCTTTTATGCAAAAGGTGGATA
267096 TTTAGGATAGGTTCAT-CCAT-CTAA
130 TTTA-GATAGGTTCATCCCATAC-AA
* ** * * * * * **
267120 ACCCATTTTAGGTCTTTTAGGGGTATCGGGTACTTCTATGTTGAA-AGTATCCCCTAAGGTTATT
1 ATCTTTTTTAAGTCCTTTAGGGATATCAGGTACTTCTATGTCGAAGA-TATCCCCTAAGGGCATT
* * * * ** *
267184 TTAGTAATTTTTTAGAACTGAGTCTTAGGTTATCACCGAGTCTGCTTTTATGCCGAAGGTAGATA
65 TTTGTAATTTTTTAGAACCGAGTCTTAAGTTGTCACCGAGTCTGCTTTTATGCAAAAGGTGGATA
* *
267249 TTTA-ATAAGTTCATCCCTTTTA-AA
130 TTTAGATAGGTTCATCCC--ATACAA
* * * *
267273 ATCTTTTTTAAGTCCTTTAGGGGTATCAGTTACTTCTATGTCGAAGATATCCCCTAAGGGTAATT
1 ATCTTTTTTAAGTCCTTTAGGGATATCAGGTACTTCTATGTCGAAGATATCCCCTAAGGGCATTT
267338 TTGTAATTTTT
66 TTGTAATTTTT
267349 CTTAAACTTA
Statistics
Matches: 308, Mismatches: 61, Indels: 27
0.78 0.15 0.07
Matches are distributed among these distances:
151 9 0.03
152 3 0.01
153 180 0.58
154 113 0.37
155 3 0.01
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (153 bp):
ATCTTTTTTAAGTCCTTTAGGGATATCAGGTACTTCTATGTCGAAGATATCCCCTAAGGGCATTT
TTGTAATTTTTTAGAACCGAGTCTTAAGTTGTCACCGAGTCTGCTTTTATGCAAAAGGTGGATAT
TTAGATAGGTTCATCCCATACAA
Found at i:269135 original size:53 final size:53
Alignment explanation
Indices: 269077--269179 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 53
269067 GAGATAGTGG
* **
269077 GGTTGGAGTATCCTTGATGGTGAAAATTTTGATGCTTTTAGAAGTAAAAACAA
1 GGTTGGAGTATCCTTGATGGTGAAAAATTCAATGCTTTTAGAAGTAAAAACAA
269130 GGTTGGAGTATCCTTGATGGTGAAAAATTCAATGCTTTTAGAAGTAAAAA
1 GGTTGGAGTATCCTTGATGGTGAAAAATTCAATGCTTTTAGAAGTAAAAA
269180 TGGAGTTAGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.35, C:0.08, G:0.24, T:0.33
Consensus pattern (53 bp):
GGTTGGAGTATCCTTGATGGTGAAAAATTCAATGCTTTTAGAAGTAAAAACAA
Found at i:270384 original size:20 final size:21
Alignment explanation
Indices: 270347--270392 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
270337 TTCTACAATT
270347 TGTATCAATATAATAAGTAAA
1 TGTATCAATATAATAAGTAAA
* *
270368 TGTATCAATA-CATAAGTGAA
1 TGTATCAATATAATAAGTAAA
270388 TGTAT
1 TGTAT
270393 TGATACATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCAATATAATAAGTAAA
Found at i:270568 original size:52 final size:50
Alignment explanation
Indices: 270457--270599 Score: 178
Period size: 52 Copynumber: 2.8 Consensus size: 50
270447 TCTGAAAAGA
* * * * *
270457 AAATGTATCGATACATTTTTATTATATCAATACATTTTGGGTTTTGACCT
1 AAATGTATCGATACATTTTCATTGTATCGATACATTTAGGGTTTTGACCC
* *
270507 AAATATATCGATACATTATTCATTGTATCGATACATTCTAGGTTTTTGACCC
1 AAATGTATCGATACATT-TTCATTGTATCGATACATT-TAGGGTTTTGACCC
* *
270559 AAATGTATCGATACATTCTTCAATGTATCGATACATGTAGG
1 AAATGTATCGATACATT-TTCATTGTATCGATACATTTAGG
270600 CTATTTTGAC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
50 16 0.20
51 20 0.25
52 44 0.55
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (50 bp):
AAATGTATCGATACATTTTCATTGTATCGATACATTTAGGGTTTTGACCC
Found at i:271588 original size:20 final size:20
Alignment explanation
Indices: 271565--271639 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
271555 AAGTACCCAG
*
271565 ATGTATGGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
271585 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
271605 ATATATCAATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
271625 ATGTATCAATACATT
1 ATGTATCGATACATT
271640 CTATCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:272584 original size:20 final size:22
Alignment explanation
Indices: 272545--272592 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
272535 TAGCCTTTGA
*
272545 CCATGCATTTTTTTACTATGTT
1 CCATGCATTTTTTCACTATGTT
272567 CCATGCA-TTTTTCA-TATG-T
1 CCATGCATTTTTTCACTATGTT
272586 CCA-GCAT
1 CCATGCAT
272593 CTCATTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.12
19 4 0.17
20 4 0.17
21 6 0.25
22 7 0.29
ACGTcount: A:0.21, C:0.23, G:0.10, T:0.46
Consensus pattern (22 bp):
CCATGCATTTTTTCACTATGTT
Found at i:273919 original size:97 final size:97
Alignment explanation
Indices: 273796--274002 Score: 369
Period size: 97 Copynumber: 2.1 Consensus size: 97
273786 TTATTCACAT
273796 CAACCCCGCTTTTAAACTTGTCAAGATTCAAATCTTATTCTCGCTTAAATTGTCATCATCAGGGA
1 CAACCCCGCTTTTAAACTTGTCAAGATTCAAATCTTATTCTCGCTTAAATTGTCATCATCAGGGA
* *
273861 CACTCTAACCCCATTCCTCCGAGGGGATACTC
66 CACTCCAACCCCATTCCTCCGAGAGGATACTC
*
273893 CAACCCCGCTTTTAAACTTGTCAAGATTCAAATCTTATTCTCGCTTAAATTGTCATCATCGGGGA
1 CAACCCCGCTTTTAAACTTGTCAAGATTCAAATCTTATTCTCGCTTAAATTGTCATCATCAGGGA
*
273958 CACTCCAACCCCATTCCTTCGAGAGGATACTC
66 CACTCCAACCCCATTCCTCCGAGAGGATACTC
*
273990 CAACCCCGTTTTT
1 CAACCCCGCTTTT
274003 TTCAATCAAA
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 105 1.00
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.30
Consensus pattern (97 bp):
CAACCCCGCTTTTAAACTTGTCAAGATTCAAATCTTATTCTCGCTTAAATTGTCATCATCAGGGA
CACTCCAACCCCATTCCTCCGAGAGGATACTC
Found at i:278259 original size:20 final size:20
Alignment explanation
Indices: 278234--278328 Score: 145
Period size: 20 Copynumber: 4.8 Consensus size: 20
278224 GTAAATCCAG
*
278234 AATGTATCGATACAACGAGC
1 AATGTATCGATACAACGAAC
*
278254 AATGTATCGATACAACAAAC
1 AATGTATCGATACAACGAAC
*
278274 AATGTATCGATACAATGAAC
1 AATGTATCGATACAACGAAC
* *
278294 AATGTATTGATACAATGAAC
1 AATGTATCGATACAACGAAC
278314 AATGTATCGATACAA
1 AATGTATCGATACAA
278329 ATTGTGAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (20 bp):
AATGTATCGATACAACGAAC
Found at i:285785 original size:28 final size:28
Alignment explanation
Indices: 285742--286297 Score: 621
Period size: 28 Copynumber: 19.1 Consensus size: 28
285732 TGTTCATTTC
* *
285742 TTCAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
285770 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
* *
285799 TTCAAAGCCTACACGAGTCGGTGGCAACTCTT
1 TTCAAAGCC--CACAAGTCAGTGGC-AC-CTT
*
285831 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
* *
285859 TTCAAAGCCTACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
*
285887 TTCAAAGCCCATAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
* *
285916 TTCAAAGCCCACACTAGTCGGTGGCAACTTTT
1 TTCAAAGCCCACA--AGTCAGTGGC-AC-CTT
285948 TTCAAAGCCCACAAGTCAGTGGCAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CTT
*
285978 TTCAAAGCCCACAAGTCAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* *
286007 TTCAAAGCCCACAAGTTAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
286035 TTCAAAGCCCACAAGTCAGTGGCACCCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* * *
286064 TT-AAAGCCCACAAGTTAGAGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
* *
286091 TTCAAAGCCCACAAGTTAGTGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* *
286120 TTCAAAGCCCACAAGTCAATGGCATTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* *
286149 TTCAAAGCCAACAAGTCAGTAGCATCC-T
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTT
* * *
286177 TTCAAAGCCCATAAGTCAGTGACACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCTT
*
286205 TTCAATGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
* *
286234 TTCAAAGCCCACACGAGTCGGTGGTAACTCTT
1 TTCAAAGCCCACA--AGTCAGTGG-CAC-CTT
*
286266 TTCAAAGCCCACACAAGTTAGTGGCACCTT
1 TTCAAAG-CC-CACAAGTCAGTGGCACCTT
286296 TT
1 TT
286298 TTTAAAAAAA
Statistics
Matches: 461, Mismatches: 48, Indels: 36
0.85 0.09 0.07
Matches are distributed among these distances:
27 7 0.02
28 185 0.40
29 124 0.27
30 55 0.12
31 31 0.07
32 53 0.11
33 2 0.00
34 4 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCTT
Found at i:285950 original size:117 final size:117
Alignment explanation
Indices: 285742--286291 Score: 686
Period size: 117 Copynumber: 4.7 Consensus size: 117
285732 TGTTCATTTC
* *
285742 TTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
* * * * *
285807 CTACACGAGTCGGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCATCTT
66 CCACACAAGTCAGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
285859 TTCAAAGCCTACAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
* * * *
285924 CCACACTAGTCGGTGGCAACTTTTTTCAAAGCCCACAAGTCAGTGGCAACTCTT
66 CCACACAAGTCAGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* *
285978 TTCAAAGCCCACAAGTCAGTGGCATTCTTTTCAAAGCCCACAAGTTAGTGGCA-TCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
* * *
286042 -CC-CACAAGTCAGTGGC-ACCCTTTT-AAAGCCCACAAGTTAGAGGCACCCT
65 CCCACACAAGTCAGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
286091 TTCAAAGCCCACAAGTTAGTGGCATTCTTTTCAAAGCCCACAAGTCAATGGCATTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAG
* * * *
286156 -CCA-ACAAGTCAGTAGC-A-TCCTTTCAAAGCCCATAAGTCAGTGACACCCT
65 CCCACACAAGTCAGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
286205 TTCAATGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGTAACTCTTTTCA
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACA--AGTCAGTGG-CACTCTTTTCA
*
286270 AAGCCCACACAAGTTAGTGGCA
62 AAGCCCACACAAGTCAGTGGCA
286292 CCTTTTTTTA
Statistics
Matches: 382, Mismatches: 38, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
113 56 0.15
114 87 0.23
115 18 0.05
116 13 0.03
117 130 0.34
118 6 0.02
119 48 0.13
120 24 0.06
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (117 bp):
TTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
CCACACAAGTCAGTGGCAACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:286423 original size:45 final size:47
Alignment explanation
Indices: 286359--286467 Score: 132
Period size: 45 Copynumber: 2.3 Consensus size: 47
286349 CTGTCTGACA
* *
286359 TCGCTAGCATTGAATCAGCATATTGG-CACCTTT-ATTAGCCCAATG
1 TCGCTAGCCTTGAATCAGCACATTGGCCACCTTTCATTAGCCCAATG
* * *
286404 TCGCTAGCCTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATT
1 TCGCTAGCCTTGAATCAGCACATTGG-CCACCTTT-CATTAGCCCAATG
*
286453 TCGCTGGCCTTGAAT
1 TCGCTAGCCTTGAAT
286468 TGCCACATTG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
45 24 0.44
47 6 0.11
49 24 0.44
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.32
Consensus pattern (47 bp):
TCGCTAGCCTTGAATCAGCACATTGGCCACCTTTCATTAGCCCAATG
Found at i:287022 original size:20 final size:20
Alignment explanation
Indices: 286999--287053 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
286989 AAGTACCCAG
*
286999 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTATCA
* * *
287019 ATGTATCTATACATGTATGA
1 ATGTATCGATACATTTATCA
287039 ATGTATCGATACATT
1 ATGTATCGATACATT
287054 CTGTCTTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:289371 original size:97 final size:97
Alignment explanation
Indices: 289264--289590 Score: 546
Period size: 97 Copynumber: 3.4 Consensus size: 97
289254 ATACTCTAAA
* * ** *
289264 CCCATTCCTCCGTGGGGATACTCTAACCCTGCTTTTAAACTTGTCAAGATTCAAATTTTATTCTC
1 CCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACTTGTCAAGATTCAAATCTTATTCTC
*
289329 GCTTAAATTATCATCATCGGGGACACTCCAAC
66 GCTTAAATTGTCATCATCGGGGACACTCCAAC
* *
289361 CCCATTCCTCCGAGGGGATATTCCAACCCCACTTTTAAACTTATCAAGATTCAAATCTTATTCTC
1 CCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACTTGTCAAGATTCAAATCTTATTCTC
289426 GCTTAAATTGTCATCATCGGGGACACTCCAAC
66 GCTTAAATTGTCATCATCGGGGACACTCCAAC
* *
289458 CCCATTCCTCCAAGGGGATACTCCAACCCCACTTTTAAACTTGTCAAGATTCAAATCTTATTCTT
1 CCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACTTGTCAAGATTCAAATCTTATTCTC
289523 GCTTAAATTGTCATCATCGGGGACACTCCAAC
66 GCTTAAATTGTCATCATCGGGGACACTCCAAC
* *
289555 CCCATTCCTTCGAGGGGATACTCCAACCCCAATTTT
1 CCCATTCCTCCGAGGGGATACTCCAACCCCACTTTT
289591 TTTCAATCAA
Statistics
Matches: 215, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 215 1.00
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.31
Consensus pattern (97 bp):
CCCATTCCTCCGAGGGGATACTCCAACCCCACTTTTAAACTTGTCAAGATTCAAATCTTATTCTC
GCTTAAATTGTCATCATCGGGGACACTCCAAC
Found at i:292490 original size:81 final size:81
Alignment explanation
Indices: 292352--292612 Score: 334
Period size: 81 Copynumber: 3.2 Consensus size: 81
292342 AAAATTAAAT
*
292352 GGGGATACTCTAACCCCACCATTTCT--AAGGGGATGC-TCCAACCCTGTTTTTACTTCTAAAAA
1 GGGGATACTCCAACCCCACCATTT-TGGAA-GGGAT-CATCCAACCCTGTTTTTACTTCTAAAAA
*
292414 TATCAAAATTTCCATCTTC
63 TATCAAATTTTCCATCTTC
* ** *
292433 GGGGATACTCCATCCCCACCATTTTGGAAGGGATCATCCAACCCCATTTTTATTTCTAAAAATAT
1 GGGGATACTCCAACCCCACCATTTTGGAAGGGATCATCCAACCCTGTTTTTACTTCTAAAAATAT
*
292498 CAAATTTTCCATCTAC
66 CAAATTTTCCATCTTC
* * *
292514 GGCGATACTCCAACCCCACCATTTTGG-GGGGAT-ACTCCAACCTTGTTTTTACTTCTAAAAATA
1 GGGGATACTCCAACCCCACCATTTTGGAAGGGATCA-TCCAACCCTGTTTTTACTTCTAAAAATA
292577 TCAAATTTTCCATCTTC
65 TCAAATTTTCCATCTTC
** *
292594 AAGGATACTCCAACGCCAC
1 GGGGATACTCCAACCCCAC
292613 TATCTCCGAT
Statistics
Matches: 157, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
79 1 0.01
80 62 0.39
81 92 0.59
82 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (81 bp):
GGGGATACTCCAACCCCACCATTTTGGAAGGGATCATCCAACCCTGTTTTTACTTCTAAAAATAT
CAAATTTTCCATCTTC
Found at i:295109 original size:51 final size:51
Alignment explanation
Indices: 295054--295191 Score: 170
Period size: 51 Copynumber: 2.7 Consensus size: 51
295044 AATTACCTAC
* * * *
295054 ATGTATAGATACATTGAAGAATGTATCAATTCATTTGGGTCAAAACCTAGA
1 ATGTATCGATACAATGAAGAATGTATCAATACATTTGGGTCAAAACCCAGA
* * * *
295105 ATGTATCGATACAATAAAAAATGTATCAATACATTTGTGTTAAAACCCAGA
1 ATGTATCGATACAATGAAGAATGTATCAATACATTTGGGTCAAAACCCAGA
* *
295156 ATATATCGATACAATG-AGACATGTATCGATACATTT
1 ATGTATCGATACAATGAAGA-ATGTATCAATACATTT
295192 TTTTCCAAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 2 0.03
51 72 0.97
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (51 bp):
ATGTATCGATACAATGAAGAATGTATCAATACATTTGGGTCAAAACCCAGA
Found at i:296240 original size:13 final size:13
Alignment explanation
Indices: 296199--296247 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
296189 CCGTTACAAG
296199 CAATGTATCGATA
1 CAATGTATCGATA
*
296212 CAAT-T-T-AAT-
1 CAATGTATCGATA
296221 C-ATGTATCGATA
1 CAATGTATCGATA
296233 CAATGTATCGATA
1 CAATGTATCGATA
296246 CA
1 CA
296248 TTGTCCCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 2 0.07
9 2 0.07
10 3 0.10
11 3 0.10
12 2 0.07
13 17 0.59
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:296263 original size:33 final size:34
Alignment explanation
Indices: 296199--296268 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
296189 CCGTTACAAG
*
296199 CAATGTATCGATACAATTTAATCATGTATCGATA
1 CAATGTATCGATACAATTTAACCATGTATCGATA
*
296233 CAATGTATCGATAC-ATTGT-CCCATGTATCGATA
1 CAATGTATCGATACAATT-TAACCATGTATCGATA
296266 CAA
1 CAA
296269 ATAGTGATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 18 0.55
34 15 0.45
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.33
Consensus pattern (34 bp):
CAATGTATCGATACAATTTAACCATGTATCGATA
Found at i:296338 original size:19 final size:19
Alignment explanation
Indices: 296297--296351 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
296287 CTACTAGTTT
*
296297 CATGTATC-ATACAATTGTC
1 CATGTATCGATACAA-TGAC
*
296316 CATGTATCGATACAATGAG
1 CATGTATCGATACAATGAC
*
296335 CATGTACCGATACAATG
1 CATGTATCGATACAATG
296352 TATCGATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 26 0.81
20 6 0.19
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAC
Found at i:296970 original size:21 final size:19
Alignment explanation
Indices: 296907--296972 Score: 57
Period size: 18 Copynumber: 3.5 Consensus size: 19
296897 TTTCGTTTTA
*
296907 CTCCCCCTT-AAAGAATTT
1 CTCCCCTTTCAAAGAATTT
* *
296925 CTCTCCTTTTAAA-AA-TT
1 CTCCCCTTTCAAAGAATTT
296942 CTCCCCCTTAATCAAAGAATTT
1 CT-CCCCTT--TCAAAGAATTT
296964 CTCCCCTTT
1 CTCCCCTTT
296973 TGTCAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
17 4 0.11
18 14 0.37
19 4 0.11
20 4 0.11
21 8 0.21
22 4 0.11
ACGTcount: A:0.26, C:0.33, G:0.03, T:0.38
Consensus pattern (19 bp):
CTCCCCTTTCAAAGAATTT
Found at i:296979 original size:22 final size:20
Alignment explanation
Indices: 296916--296973 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
296906 ACTCCCCCTT
*
296916 AAAGAATTTCTCTCCTTTT-
1 AAAGAATTTCTCCCCTTTTC
*
296935 AAA-AA-TTCTCCCCCTTAATC
1 AAAGAATTTCT-CCCCTT-TTC
296955 AAAGAATTTCTCCCCTTTT
1 AAAGAATTTCTCCCCTTTT
296974 GTCAAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
17 4 0.13
18 7 0.23
19 4 0.13
20 4 0.13
21 8 0.26
22 4 0.13
ACGTcount: A:0.29, C:0.28, G:0.03, T:0.40
Consensus pattern (20 bp):
AAAGAATTTCTCCCCTTTTC
Found at i:299659 original size:234 final size:234
Alignment explanation
Indices: 299250--299720 Score: 881
Period size: 234 Copynumber: 2.0 Consensus size: 234
299240 AATCAAGGAG
299250 GATTCATAAGACCAAGTTCTCTCCTTATGGTGCAAAATCTACTTTTGTCAAGTGGTTTCGTGAAA
1 GATTCATAAGACCAAGTTCTCTCCTTATGGTGCAAAATCTACTTTTGTCAAGTGGTTTCGTGAAA
* *
299315 ATATTGGCAAGTTGGTGCAAGGTATCTACAAATTCTATTACAACATCCCCTTTTTGCACATAATC
66 ATATCGACAAGTTGGTGCAAGGTATCTACAAATTCTATTACAACATCCCCTTTTTGCACATAATC
*
299380 TCTAATAAAGTGATGTCTTATTTCAATGTGCTTAATCCTAGAATGTTGTATTGGATTTTTAGTGA
131 TCTAATAAAGTGACGTCTTATTTCAATGTGCTTAATCCTAGAATGTTGTATTGGATTTTTAGTGA
*
299445 GGCATATTGCACTAGCATTATCACATTTAATGTGAATAT
196 GGCATATTGCACTAGCATTATCACATTTAATGGGAATAT
299484 GATTCATAAGACCAAGTTCTCTCCTTATGGTGCAAAATCTACTTTTGTCAAGTGGTTTCGTGAAA
1 GATTCATAAGACCAAGTTCTCTCCTTATGGTGCAAAATCTACTTTTGTCAAGTGGTTTCGTGAAA
299549 ATATCGACAAGTTGGTGCAAGGTATCTACAAATTCTATTACAACAT-CCCTATTTTGCACATAAT
66 ATATCGACAAGTTGGTGCAAGGTATCTACAAATTCTATTACAACATCCCCT-TTTTGCACATAAT
*
299613 CTCTAATAAAGTGACGTCTTATTTCAATGTGCTTAGTCCTAGAATGTTGTATTGGATTTTTAGTG
130 CTCTAATAAAGTGACGTCTTATTTCAATGTGCTTAATCCTAGAATGTTGTATTGGATTTTTAGTG
299678 AGGCATATTGCACTAGCATTATCACATTTAATGGGAATAT
195 AGGCATATTGCACTAGCATTATCACATTTAATGGGAATAT
299718 GAT
1 GAT
299721 CCATGGTAAT
Statistics
Matches: 231, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
233 4 0.02
234 227 0.98
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (234 bp):
GATTCATAAGACCAAGTTCTCTCCTTATGGTGCAAAATCTACTTTTGTCAAGTGGTTTCGTGAAA
ATATCGACAAGTTGGTGCAAGGTATCTACAAATTCTATTACAACATCCCCTTTTTGCACATAATC
TCTAATAAAGTGACGTCTTATTTCAATGTGCTTAATCCTAGAATGTTGTATTGGATTTTTAGTGA
GGCATATTGCACTAGCATTATCACATTTAATGGGAATAT
Found at i:302110 original size:17 final size:17
Alignment explanation
Indices: 302088--302121 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
302078 ATTACGAGAT
302088 TTTTCCTAGATAACTTA
1 TTTTCCTAGATAACTTA
302105 TTTTCCTAGATAACTTA
1 TTTTCCTAGATAACTTA
302122 GAGAGTACGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (17 bp):
TTTTCCTAGATAACTTA
Found at i:305252 original size:13 final size:13
Alignment explanation
Indices: 305211--305259 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
305201 TCGTTACAAG
305211 CAATGTATCGATA
1 CAATGTATCGATA
305224 CAAT-T-TC-AT-
1 CAATGTATCGATA
305233 C-ATGTATCGATA
1 CAATGTATCGATA
305245 CAATGTATCGATA
1 CAATGTATCGATA
305258 CA
1 CA
305260 TTGTCCCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
8 2 0.06
9 2 0.06
10 4 0.13
11 4 0.13
12 2 0.06
13 17 0.55
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:305252 original size:34 final size:33
Alignment explanation
Indices: 305211--305277 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
305201 TCGTTACAAG
*
305211 CAATGTATCGATACAATT-TCATCATGTATCGATA
1 CAATGTATCGATAC-ATTGTC-CCATGTATCGATA
305245 CAATGTATCGATACATTGTCCCATGTATCGATA
1 CAATGTATCGATACATTGTCCCATGTATCGATA
305278 AAAATAGTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 15 0.48
34 16 0.52
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.34
Consensus pattern (33 bp):
CAATGTATCGATACATTGTCCCATGTATCGATA
Found at i:305334 original size:20 final size:21
Alignment explanation
Indices: 305309--305349 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
305299 CTGCCAGTCT
*
305309 CATGTATTGATACAAT-TATC
1 CATGTATCGATACAATGTATC
305329 CATGTATCGATACAATGTATC
1 CATGTATCGATACAATGTATC
305350 GATACAAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (21 bp):
CATGTATCGATACAATGTATC
Found at i:305348 original size:13 final size:13
Alignment explanation
Indices: 305330--305356 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
305320 ACAATTATCC
305330 ATGTATCGATACA
1 ATGTATCGATACA
305343 ATGTATCGATACA
1 ATGTATCGATACA
305356 A
1 A
305357 AGCAGTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:306089 original size:44 final size:44
Alignment explanation
Indices: 306040--306176 Score: 184
Period size: 44 Copynumber: 3.0 Consensus size: 44
306030 GGGATAAAAA
306040 GTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAAGGAAAAGG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAAGGAAAAGG
* *
306084 GTGCCAACAACTTGTGTGGGCTTTGAAAAAGAAAAAAGAAAAAAGAAAGG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAAAG-AAAAAG----GA-AAAGG
* *
306134 GTGCCACCATCTTGTGTGGGTTTTGAAAAAGAAAAAGGAAAAG
1 GTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAAGGAAAAG
306177 CGTCATGCTC
Statistics
Matches: 81, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
44 34 0.42
45 7 0.09
49 7 0.09
50 33 0.41
ACGTcount: A:0.42, C:0.12, G:0.28, T:0.19
Consensus pattern (44 bp):
GTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAAGGAAAAGG
Found at i:306135 original size:50 final size:51
Alignment explanation
Indices: 306065--306175 Score: 170
Period size: 50 Copynumber: 2.2 Consensus size: 51
306055 GTGGGCTTTG
*
306065 AAAAAGAAAAAGGAAAAGGGTGCCAACAACTTGTGTGGGCTTTGAAAAAGA
1 AAAAAGAAAAAAGAAAAGGGTGCCAACAACTTGTGTGGGCTTTGAAAAAGA
* * *
306116 AAAAAGAAAAAAG-AAAGGGTGCCACCATCTTGTGTGGGTTTTGAAAAAGA
1 AAAAAGAAAAAAGAAAAGGGTGCCAACAACTTGTGTGGGCTTTGAAAAAGA
*
306166 AAAAGGAAAA
1 AAAAAGAAAA
306176 GCGTCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
50 43 0.78
51 12 0.22
ACGTcount: A:0.49, C:0.09, G:0.26, T:0.16
Consensus pattern (51 bp):
AAAAAGAAAAAAGAAAAGGGTGCCAACAACTTGTGTGGGCTTTGAAAAAGA
Found at i:306251 original size:71 final size:71
Alignment explanation
Indices: 306165--306458 Score: 325
Period size: 72 Copynumber: 4.1 Consensus size: 71
306155 TTTGAAAAAG
* * * * *
306165 AAAAAGGAAAAGCGTCATGCTCTTTAAGGACTAAAAAGGAT-AAAA-TGATGCCACGAGCTTTTG
1 AAAAA-GAAAAGCATCATGCTCTTTAAGGACTAAAAAAGATAAAAAGTG-TGCCACCAACTTGTG
306228 TGGGCTTT
64 TGGGCTTT
* * * *
306236 AAAAAGAAAAGGCGTCTTGCTCTTTAAGGACT-TAAAGGATAAAAAGGTGTGCCACCAACTTGTG
1 AAAAAGAAAA-GCATCATGCTCTTTAAGGACTAAAAAAGATAAAAA-GTGTGCCACCAACTTGTG
306300 TGGGCTTT
64 TGGGCTTT
* *
306308 AGAAAGAAAAGCATCCTGCTCTTTCAA-GACTAAAAAAGATAAAAAGGTGTGCCACCAACTTGTG
1 AAAAAGAAAAGCATCATGCTCTTT-AAGGACTAAAAAAGATAAAAA-GTGTGCCACCAACTTGTG
*
306372 TGGACTTT
64 TGGGCTTT
** *
306380 -AGGAGAAAAAGCATCATGCTCTTTAAGGACTAAAAAAG-T-AAAAG-ATGCCACCAACTTGTGT
1 AAAAAG-AAAAGCATCATGCTCTTTAAGGACTAAAAAAGATAAAAAGTGTGCCACCAACTTGTGT
306441 GGGCTTT
65 GGGCTTT
306448 GAAAAAGAAAA
1 -AAAAAGAAAA
306459 AGAGAAAGGG
Statistics
Matches: 194, Mismatches: 19, Indels: 22
0.83 0.08 0.09
Matches are distributed among these distances:
68 22 0.11
69 5 0.03
70 19 0.10
71 50 0.26
72 96 0.49
73 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.24
Consensus pattern (71 bp):
AAAAAGAAAAGCATCATGCTCTTTAAGGACTAAAAAAGATAAAAAGTGTGCCACCAACTTGTGTG
GGCTTT
Found at i:306460 original size:142 final size:143
Alignment explanation
Indices: 306164--306458 Score: 336
Period size: 143 Copynumber: 2.1 Consensus size: 143
306154 TTTTGAAAAA
* * * * *
306164 GAAAAAGGAAAAGCGTCATGCTCTTTAAGGACTAAAAAGGATAAAATGATGCCACGAGCTTTTGT
1 GAAAAA-GAAAAGCATCATGCTCTTTAAGGACTAAAAAAGATAAAATGATGCCACCAACTTGTGT
* * * * * * *
306229 GGGCTTTAAAAAGAAAAGGCGTCTTGCTCTTTAAGGACTTAAAGGATAAAAAGGTGTGCCACCAA
65 GGACTTTAAAAAGAAAAAGCATCATGCTCTTTAAGGACTAAAAAGATAAAAAGGTATGCCACCAA
306294 CTTGTGTGGGCTTT
130 CTTGTGTGGGCTTT
* *
306308 -AGAAAGAAAAGCATCCTGCTCTTTCAA-GACTAAAAAAGATAAAAAGGTG-TGCCACCAACTTG
1 GAAAAAGAAAAGCATCATGCTCTTT-AAGGACTAAAAAAGAT-AAAA--TGATGCCACCAACTTG
**
306370 TGTGGACTTT-AGGAGAAAAAGCATCATGCTCTTTAAGGACTAAAAA-AGT-AAAA-G-ATGCCA
62 TGTGGACTTTAAAAAGAAAAAGCATCATGCTCTTTAAGGACTAAAAAGA-TAAAAAGGTATGCCA
306430 CCAACTTGTGTGGGCTTT
126 CCAACTTGTGTGGGCTTT
306448 GAAAAAGAAAA
1 GAAAAAGAAAA
306459 AGAGAAAGGG
Statistics
Matches: 128, Mismatches: 17, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
140 23 0.18
141 10 0.08
142 34 0.27
143 40 0.31
144 19 0.15
145 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (143 bp):
GAAAAAGAAAAGCATCATGCTCTTTAAGGACTAAAAAAGATAAAATGATGCCACCAACTTGTGTG
GACTTTAAAAAGAAAAAGCATCATGCTCTTTAAGGACTAAAAAGATAAAAAGGTATGCCACCAAC
TTGTGTGGGCTTT
Found at i:306474 original size:44 final size:44
Alignment explanation
Indices: 306425--306630 Score: 170
Period size: 44 Copynumber: 5.0 Consensus size: 44
306415 AAGTAAAAGA
306425 TGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAAGAGAAAGGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAAGAGAAAGGG
306469 TGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAA-AGGAAA--G
1 TGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAAGA-GAAAGGG
* ** ** **
306511 TG---CC-A--TG-CT---CTTTGAGGACTAAAAAGTTAAAGGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAAGAGAAAGGG
* * *
306545 TGCAACCAACTTGTGTGGGCTTTGAAAAAAAAAAAGA-AAAAGG
1 TGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAAGAGAAAGGG
* * * *
306588 TGCCACCAGCTTATGTGGGCTTTGGAAAAAGGAAAAGAAAAAG
1 TGCCACCAACTTGTGTGGGCTTT-GAAAAAGAAAAAGAGAAAG
306631 CGTCATGCTC
Statistics
Matches: 126, Mismatches: 20, Indels: 31
0.71 0.11 0.18
Matches are distributed among these distances:
32 15 0.12
34 3 0.02
35 1 0.01
36 2 0.02
37 2 0.02
38 2 0.02
39 2 0.02
40 2 0.02
41 1 0.01
42 3 0.02
43 26 0.21
44 64 0.51
45 3 0.02
ACGTcount: A:0.40, C:0.14, G:0.27, T:0.20
Consensus pattern (44 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAAGAGAAAGGG
Found at i:306553 original size:120 final size:121
Alignment explanation
Indices: 306383--306701 Score: 393
Period size: 120 Copynumber: 2.6 Consensus size: 121
306373 GGACTTTAGG
** *
306383 AGAAAAAGCATCATGCTCTTTAAGGACTAAAAAAG-TAAAAGATGCCACCAACTTGTGTGGGCTT
1 AGAAAAAGCGCCATGCTCTTTAAGGACTAAAAAAGTTAAAAGGTGCCACCAACTTGTGTGGGCTT
* *
306447 TGAAAAAGAAAAAGAGAAAGGGTGCCACCAACTTGTGTGGGCTTT-GAAAAA-GAAA
66 TGAAAAAGAAAAAGA-AAAAGGTGCCACCAACTTATGTGGGCTTTGGAAAAAGGAAA
* * * *
306502 A-AAGGAAAGTGCCATGCTCTTTGAGGACT-AAAAAGTTAAAGGGTGCAACCAACTTGTGTGGGC
1 AGAA--AAAGCGCCATGCTCTTTAAGGACTAAAAAAGTTAAAAGGTGCCACCAACTTGTGTGGGC
* *
306565 TTTGAAAAAAAAAAAGAAAAAGGTGCCACCAGCTTATGTGGGCTTTGGAAAAAGGAAA
64 TTTGAAAAAGAAAAAGAAAAAGGTGCCACCAACTTATGTGGGCTTTGGAAAAAGGAAA
* * *
306623 AGAAAAAGCGTCATGCTCTTTAAGGA-TGAAAAAGGATAAAAAAGGTGCCA-CAAGCTTGTGTGG
1 AGAAAAAGCGCCATGCTCTTTAAGGACT-AAAAAAG-T-TAAAAGGTGCCACCAA-CTTGTGTGG
306686 GCTTT-AAAAAGAAAAA
62 GCTTTGAAAAAGAAAAA
306702 AGGCATCATG
Statistics
Matches: 170, Mismatches: 19, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
118 2 0.01
119 34 0.20
120 85 0.50
121 10 0.06
122 16 0.09
123 23 0.14
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (121 bp):
AGAAAAAGCGCCATGCTCTTTAAGGACTAAAAAAGTTAAAAGGTGCCACCAACTTGTGTGGGCTT
TGAAAAAGAAAAAGAAAAAGGTGCCACCAACTTATGTGGGCTTTGGAAAAAGGAAA
Found at i:306605 original size:43 final size:44
Alignment explanation
Indices: 306543--306630 Score: 124
Period size: 43 Copynumber: 2.0 Consensus size: 44
306533 AAAGTTAAAG
*
306543 GGTGCAACCAACTTGTGTGGGCTTT-GAAAAAAAAAAAGAAAAA
1 GGTGCAACCAACTTATGTGGGCTTTGGAAAAAAAAAAAGAAAAA
* * **
306586 GGTGCCACCAGCTTATGTGGGCTTTGGAAAAAGGAAAAGAAAAA
1 GGTGCAACCAACTTATGTGGGCTTTGGAAAAAAAAAAAGAAAAA
306630 G
1 G
306631 CGTCATGCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 22 0.56
44 17 0.44
ACGTcount: A:0.42, C:0.12, G:0.27, T:0.18
Consensus pattern (44 bp):
GGTGCAACCAACTTATGTGGGCTTTGGAAAAAAAAAAAGAAAAA
Found at i:306668 original size:80 final size:75
Alignment explanation
Indices: 306581--307013 Score: 306
Period size: 69 Copynumber: 5.9 Consensus size: 75
306571 AAAAAAAAAG
* *
306581 AAAAAGGTGCCACCAGCTTATGTGGGCTTTGGAAAAAGGAAAAGAAAAAGCGTCATGCTCTTTAA
1 AAAAAGGTGCCACCAGCTTGTGTGGGCTTTGGAAAAA-G--AA-AAAAAGCATCATGCTCTTTAA
306646 GGA-TGAAAAAGGATA
62 GGACT--AAAAGGATA
* * * *
306661 AAAAAGGTGCCACAAGCTTGTGTGGGCTTT--AAAAAGAAAAAAGGCATCATGCTTTTTGAGGAC
1 AAAAAGGTGCCACCAGCTTGTGTGGGCTTTGGAAAAAGAAAAAAAGCATCATGCTCTTTAAGGAC
306724 TAAAAGGATA
66 TAAAAGGATA
* * ** * *
306734 AAAAGATGTGCCACCAACTTGTGTGGGCTTTAGG----AG--AAAAAGTGTCTTGCTCTTTGAGG
1 AAAA-AGGTGCCACCAGCTTGTGTGGGCTTT-GGAAAAAGAAAAAAAGCATCATGCTCTTTAAGG
306793 ACTAAAAAGG-T-
64 ACT-AAAAGGATA
* * * **
306804 -AAAAGGTGCCGCCAACTTGTGTGGGCTTT-G-AAAAG--AAAAAGCGTTTTGCTCTTTAAGGAC
1 AAAAAGGTGCCACCAGCTTGTGTGGGCTTTGGAAAAAGAAAAAAAGCATCATGCTCTTTAAGGAC
*
306864 TAAAAAGAT-
66 TAAAAGGATA
* * *
306873 -AAAAGGT-CCTACCAGCTTGTGTGGGCTTT-G-AAAAGAAAAAAA-CGTCTTGCTCTTTGAGGA
1 AAAAAGGTGCC-ACCAGCTTGTGTGGGCTTTGGAAAAAGAAAAAAAGCATCATGCTCTTTAAGGA
*
306933 CTAAAAAG-T-
65 CTAAAAGGATA
* * * * * *
306942 TATAAGGCGCCAGCAGCTTGTGTGGG-TTTTGAAAAAGAAAAAAGAAAAGCATCATGCTC-TTGA
1 AAAAAGGTGCCACCAGCTTGTGTGGGCTTTGGAAAAAG---AAA-AAAAGCATCATGCTCTTTAA
307005 GGACTAAAA
62 GGACTAAAA
307014 ATAAAGGGTT
Statistics
Matches: 302, Mismatches: 29, Indels: 49
0.79 0.08 0.13
Matches are distributed among these distances:
66 1 0.00
68 31 0.10
69 63 0.21
70 44 0.15
71 34 0.11
72 6 0.02
73 15 0.05
74 46 0.15
75 20 0.07
76 8 0.03
77 1 0.00
78 5 0.02
80 28 0.09
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (75 bp):
AAAAAGGTGCCACCAGCTTGTGTGGGCTTTGGAAAAAGAAAAAAAGCATCATGCTCTTTAAGGAC
TAAAAGGATA
Found at i:306843 original size:454 final size:456
Alignment explanation
Indices: 306079--306912 Score: 1172
Period size: 454 Copynumber: 1.8 Consensus size: 456
306069 AGAAAAAGGA
*
306079 AAAGGGTGCCAACAACTTGTGTGGGCTTTGAAAAAGAAAAAAGAAAAAAGAAAGGGTGCCACCAT
1 AAAGGGTGCCAACAACTTGTGTGGGCTTTGAAAAAGAAAAAAG---AAAGAAAGGGTGCCACCAG
* * *
306144 CTTGTGTGGGTTTTGAAAAAGAAAAAGGAAAAGCGTCATGCTCTTTAAGGACTAAAAAGGATAAA
63 CTTATGTGGGTTTGGAAAAAGAAAAAGAAAAAGCGTCATGCTCTTTAAGGACTAAAAAGGATAAA
* * * * * *
306209 ATGATGCCACGAGCTTTTGTGGGCTTTAAAAAGAAAAGGCGTCTTGCTCTTTAAGGACTTAAAGG
128 AAGATGCCACAAGCTTGTGTGGGCTTTAAAAAGAAAAGGCATCATGCTCTTTAAGGACTAAAAGG
*
306274 ATAAAAAGGTGTGCCACCAACTTGTGTGGGCTTTAGAAAGAAAAGCATCCTGCTCTTTCAAGACT
193 ATAAAAAGATGTGCCACCAACTTGTGTGGGCTTTAGAAAGAAAAGCATCCTGCTCTTTCAAGACT
**
306339 AAAAAAGATAAAAAGGTGTGCCACCAACTTGTGTGGACTTTAGGAGAAAAAGCATCATGCTCTTT
258 AAAAAAGATAAAAAGGTGTGCCACCAACTTGTGTGGACTTTAAAAGAAAAAGCATCATGCTCTTT
306404 AAGGACTAAAAA-AGTAAAAGATGCC-ACCAACTTGTGTGGGCTTTGAAAAAGAAAAAGAGAAAG
323 AAGGACTAAAAAGA-TAAAAGAT-CCTACCAACTTGTGTGGGCTTTG-AAAAGAAAAAGAGAAAG
306467 GGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAAAGGAAAGTGCCATGCTCTTTGAGGACTA
385 GGTGCCACCAACTTGTGTGGGCTTTGAAAAAGAAAAAAGGAAAGTGCCATGCTCTTTGAGGACTA
306532 AAAAGTT
450 AAAAGTT
306539 AAAGGGTG-CAACCAACTTGTGTGGGCTTTGAAAAA-AAAAAAG-AA-AAA-GGTGCCACCAGCT
1 AAAGGGTGCCAA-CAACTTGTGTGGGCTTTGAAAAAGAAAAAAGAAAGAAAGGGTGCCACCAGCT
*
306599 TATGTGGGCTTTGGAAAAAGGAAAAGAAAAAGCGTCATGCTCTTTAAGGA-TGAAAAAGGATAAA
65 TATGTGGG-TTTGGAAAAAGAAAAAGAAAAAGCGTCATGCTCTTTAAGGACT-AAAAAGGAT-AA
* * *
306663 AAAGGTGCCACAAGCTTGTGTGGGCTTTAAAAAGAAAAAAGGCATCATGCTTTTTGAGGACTAAA
127 AAAGATGCCACAAGCTTGTGTGGGCTTTAAAAAG--AAAAGGCATCATGCTCTTTAAGGACTAAA
* ** * * *
306728 AGGATAAAAAGATGTGCCACCAACTTGTGTGGGCTTTAG-GAGAAAAAGTGTCTTGCTCTTTGAG
190 AGGATAAAAAGATGTGCCACCAACTTGTGTGGGCTTTAGAAAG-AAAAGCATCCTGCTCTTTCAA
* * * * **
306792 GACT-AAAAAGGT-AAAA-G-GTGCCGCCAACTTGTGTGGGCTTTGAAAAGAAAAAGCGTTTTGC
254 GACTAAAAAAGATAAAAAGGTGTGCCACCAACTTGTGTGGACTTT-AAAAGAAAAAGCATCATGC
* *
306853 TCTTTAAGGACTAAAAAGATAAAAGGTCCTACCAGCTTGTGTGGGCTTTGAAAAGAAAAA
318 TCTTTAAGGACTAAAAAGATAAAAGATCCTACCAACTTGTGTGGGCTTTGAAAAGAAAAA
306913 AACGTCTTGC
Statistics
Matches: 333, Mismatches: 31, Indels: 27
0.85 0.08 0.07
Matches are distributed among these distances:
453 54 0.16
454 108 0.32
455 39 0.12
456 9 0.03
457 82 0.25
459 10 0.03
460 31 0.09
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (456 bp):
AAAGGGTGCCAACAACTTGTGTGGGCTTTGAAAAAGAAAAAAGAAAGAAAGGGTGCCACCAGCTT
ATGTGGGTTTGGAAAAAGAAAAAGAAAAAGCGTCATGCTCTTTAAGGACTAAAAAGGATAAAAAG
ATGCCACAAGCTTGTGTGGGCTTTAAAAAGAAAAGGCATCATGCTCTTTAAGGACTAAAAGGATA
AAAAGATGTGCCACCAACTTGTGTGGGCTTTAGAAAGAAAAGCATCCTGCTCTTTCAAGACTAAA
AAAGATAAAAAGGTGTGCCACCAACTTGTGTGGACTTTAAAAGAAAAAGCATCATGCTCTTTAAG
GACTAAAAAGATAAAAGATCCTACCAACTTGTGTGGGCTTTGAAAAGAAAAAGAGAAAGGGTGCC
ACCAACTTGTGTGGGCTTTGAAAAAGAAAAAAGGAAAGTGCCATGCTCTTTGAGGACTAAAAAGT
T
Found at i:306864 original size:69 final size:69
Alignment explanation
Indices: 306619--306983 Score: 380
Period size: 69 Copynumber: 5.2 Consensus size: 69
306609 TTGGAAAAAG
* *
306619 GAAAAGAAAAAGCGTCATGCTCTTTAAGGA-TGAAAAAGGATAAAAAAGGTGCCA-CAAGCTTGT
1 GAAAAGAAAAAGCGTCTTGCTCTTTGAGGACT-AAAAAGG-T--AAAAGGTGCCACCAA-CTTGT
306682 GTGGGCTTT
61 GTGGGCTTT
* * * *
306691 AAAAAGAAAAAAGGCATCATGCTTTTTGAGGACT-AAAAGGATAAAAAGATGTGCCACCAACTTG
1 GAAAAG-AAAAA-GCGTCTTGCTCTTTGAGGACTAAAAAGG-T-AAAAG--GTGCCACCAACTTG
306755 TGTGGGCTTT
60 TGTGGGCTTT
** * *
306765 -AGGAGAAAAAGTGTCTTGCTCTTTGAGGACTAAAAAGGTAAAAGGTGCCGCCAACTTGTGTGGG
1 GAAAAGAAAAAGCGTCTTGCTCTTTGAGGACTAAAAAGGTAAAAGGTGCCACCAACTTGTGTGGG
306829 CTTT
66 CTTT
* * * *
306833 GAAAAGAAAAAGCGTTTTGCTCTTTAAGGACTAAAAAGATAAAAGGT-CCTACCAGCTTGTGTGG
1 GAAAAGAAAAAGCGTCTTGCTCTTTGAGGACTAAAAAGGTAAAAGGTGCC-ACCAACTTGTGTGG
306897 GCTTT
65 GCTTT
* * * * * *
306902 GAAAAGAAAAAAACGTCTTGCTCTTTGAGGACTAAAAAGTTATAAGGCGCCAGCAGCTTGTGTGG
1 GAAAAG-AAAAAGCGTCTTGCTCTTTGAGGACTAAAAAGGTAAAAGGTGCCACCAACTTGTGTGG
*
306967 GTTTT
65 GCTTT
306972 GAAAAAGAAAAA
1 G-AAAAGAAAAA
306984 AGAAAAGCAT
Statistics
Matches: 254, Mismatches: 27, Indels: 26
0.83 0.09 0.08
Matches are distributed among these distances:
68 25 0.10
69 63 0.25
70 63 0.25
71 25 0.10
72 22 0.09
73 16 0.06
74 36 0.14
75 4 0.02
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (69 bp):
GAAAAGAAAAAGCGTCTTGCTCTTTGAGGACTAAAAAGGTAAAAGGTGCCACCAACTTGTGTGGG
CTTT
Found at i:306939 original size:139 final size:139
Alignment explanation
Indices: 306575--307014 Score: 408
Period size: 139 Copynumber: 3.0 Consensus size: 139
306565 TTTGAAAAAA
* *
306575 AAAAAGA-AAAAGGTGCCACCAGCTTATGTGGGCTTTGGAAAAAGGAAAAGAAAAAGCGTCATGC
1 AAAAAGATAAAAGGTGCCACCAGCTTGTGTGGGCTTT-G-AAAA-G--AA-AAAAA-CGTCTTGC
* * *
306639 TCTTTAAGGA-TGAAAAAGGATAAAAAAGGTGCCACAAGCTTGTGTGGGCTTTAAAAAGAAAAAA
59 TCTTTGAGGACT-AAAAAGG-T--AAAAGGTGCCGCAA-CTTGTGTGGGCTTTGAAAAG-AAAAA
* *
306703 GGCATCATGCTTTTTGAGGACT
118 GGCATCATGCTCTTTAAGGACT
* * ** **
306725 AAAAGGATAAAAAGATGTGCCACCAACTTGTGTGGGCTTT-AGGAG-AAAAAGTGTCTTGCTCTT
1 AAAAAGAT-AAAAG--GTGCCACCAGCTTGTGTGGGCTTTGAAAAGAAAAAAACGTCTTGCTCTT
* **
306788 TGAGGACTAAAAAGGTAAAAGGTGCCGCCAACTTGTGTGGGCTTTGAAAAGAAAAA-GCGTTTTG
63 TGAGGACTAAAAAGGTAAAAGGTGCCG-CAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATCATG
306852 CTCTTTAAGGACT
127 CTCTTTAAGGACT
306865 AAAAAGATAAAAGGT-CCTACCAGCTTGTGTGGGCTTTGAAAAGAAAAAAACGTCTTGCTCTTTG
1 AAAAAGATAAAAGGTGCC-ACCAGCTTGTGTGGGCTTTGAAAAGAAAAAAACGTCTTGCTCTTTG
* * * * *
306929 AGGACTAAAAAGTTATAAGGCGCCAGCAGCTTGTGTGGGTTTTGAAAAAGAAAAAAGAAAAGCAT
65 AGGACTAAAAAGGTAAAAGGTGCC-GCAACTTGTGTGGGCTTTG-AAAAG-AAAAAG----GCAT
*
306994 CATGCTC-TTGAGGACT
123 CATGCTCTTTAAGGACT
307010 AAAAA
1 AAAAA
307015 TAAAGGGTTT
Statistics
Matches: 242, Mismatches: 31, Indels: 39
0.78 0.10 0.12
Matches are distributed among these distances:
136 2 0.01
137 20 0.08
138 3 0.01
139 60 0.25
140 29 0.12
141 10 0.04
142 29 0.12
143 3 0.01
144 1 0.00
145 35 0.14
146 13 0.05
147 1 0.00
150 7 0.03
151 2 0.01
152 5 0.02
154 22 0.09
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.24
Consensus pattern (139 bp):
AAAAAGATAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAAGAAAAAAACGTCTTGCTCTTTGA
GGACTAAAAAGGTAAAAGGTGCCGCAACTTGTGTGGGCTTTGAAAAGAAAAAGGCATCATGCTCT
TTAAGGACT
Found at i:306959 original size:70 final size:69
Alignment explanation
Indices: 306619--306983 Score: 344
Period size: 70 Copynumber: 5.2 Consensus size: 69
306609 TTGGAAAAAG
* * *
306619 GAAAAGAAAAAGCGTCATGCTCTTTAAGGA-TGAAAAAGGATAAAAAAGGTGCCA-CAAGCTTGT
1 GAAAAGAAAAAGCGTCTTGCTCTTTGAGGACT-AAAAA-GAT--AAAAGGCGCCAGC-AGCTTGT
306682 GTGGGCTTT
61 GTGGGCTTT
* * * * * * * *
306691 AAAAAGAAAAAAGGCATCATGCTTTTTGAGGACTAAAAGGATAAAAAGATGTGCCACCAACTTGT
1 GAAAAG-AAAAA-GCGTCTTGCTCTTTGAGGACTAAAAAGAT-AAAAG--GCGCCAGCAGCTTGT
306756 GTGGGCTTT
61 GTGGGCTTT
** * * * *
306765 -AGGAGAAAAAGTGTCTTGCTCTTTGAGGACTAAAAAGGTAAAAGGTGCC-GCCAACTTGTGTGG
1 GAAAAGAAAAAGCGTCTTGCTCTTTGAGGACTAAAAAGATAAAAGGCGCCAG-CAGCTTGTGTGG
306828 GCTTT
65 GCTTT
* * * *
306833 GAAAAGAAAAAGCGTTTTGCTCTTTAAGGACTAAAAAGATAAAAGGTC-CTACCAGCTTGTGTGG
1 GAAAAGAAAAAGCGTCTTGCTCTTTGAGGACTAAAAAGATAAAAGG-CGCCAGCAGCTTGTGTGG
306897 GCTTT
65 GCTTT
* * *
306902 GAAAAGAAAAAAACGTCTTGCTCTTTGAGGACTAAAAAGTTATAAGGCGCCAGCAGCTTGTGTGG
1 GAAAAG-AAAAAGCGTCTTGCTCTTTGAGGACTAAAAAGATAAAAGGCGCCAGCAGCTTGTGTGG
*
306967 GTTTT
65 GCTTT
306972 GAAAAAGAAAAA
1 G-AAAAGAAAAA
306984 AGAAAAGCAT
Statistics
Matches: 247, Mismatches: 33, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
68 22 0.09
69 63 0.26
70 64 0.26
71 28 0.11
72 16 0.06
73 11 0.04
74 41 0.17
75 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (69 bp):
GAAAAGAAAAAGCGTCTTGCTCTTTGAGGACTAAAAAGATAAAAGGCGCCAGCAGCTTGTGTGGG
CTTT
Found at i:307886 original size:27 final size:26
Alignment explanation
Indices: 307837--307893 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
307827 CACCATTTTT
*
307837 TTTTAAGTCCACAACTTCGTGGCATCC
1 TTTTAAGTCCACAACTTCATGGCA-CC
*
307864 TTTTAAGTCCATAAC-TCTATGGCACC
1 TTTTAAGTCCACAACTTC-ATGGCACC
307890 TTTT
1 TTTT
307894 TCTTTTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (26 bp):
TTTTAAGTCCACAACTTCATGGCACC
Found at i:307912 original size:60 final size:61
Alignment explanation
Indices: 307803--308293 Score: 387
Period size: 60 Copynumber: 7.8 Consensus size: 61
307793 GCACATTTTT
* *
307803 CTTTTAAAGTCCACAACTCTGTGGCACCATTTTT-TTTT-AAGTCCACAACTTCGTGGCATC
1 CTTTTAAAGTCCACAACTCTATGGCACC-TTTTTCTTTTAAAGTCCACAACTTCATGGCATC
* *
307863 CTTTT-AAGTCCATAACTCTATGGCACCTTTTTCTTTTAAAGTCCACAACTCCATGGCATC
1 CTTTTAAAGTCCACAACTCTATGGCACCTTTTTCTTTTAAAGTCCACAACTTCATGGCATC
* *
307923 TTTTTCTTTTAAAGTCCACAACTCTATGGCATCTTTTTCTTTTAAAGTCCACAACTTCATGGCGT
1 -----CTTTTAAAGTCCACAACTCTATGGCACCTTTTTCTTTTAAAGTCCACAACTTCATGGCAT
307988 CC
61 -C
* *** *
307990 TTTTTCTTTTTAAAGTCTACAACTCCGCGGCACCTTTTT-TTTTAAACTCCACAACTTCATGGCA
1 -----C-TTTTAAAGTCCACAACTCTATGGCACCTTTTTCTTTTAAAGTCCACAACTTCATGGCA
308054 TCC
60 T-C
* * * * * * *
308057 TTTTTCTTTTTAAGTCCACAACT-TCGTGGCACCCTTGTTCTTTTTAAGTCTATAACTTCGTGGC
1 -----CTTTTAAAGTCCACAACTCT-ATGGCA-CCTTTTTCTTTTAAAGTCCACAACTTCATGGC
*
308121 ACC
59 ATC
* * *
308124 CTTTT-AAGTCCACAACTTTGTGGCACCTTTTTCTTTTAAAGTCTACAACTTCATGGCA-C
1 CTTTTAAAGTCCACAACTCTATGGCACCTTTTTCTTTTAAAGTCCACAACTTCATGGCATC
* * * *
308183 CATTTTTTTTAAAGTCCAAAACTCAATGGCACC-----CTTTTTAAGTCCACAACTCCATGGCA-
1 C-----TTTTAAAGTCCACAACTCTATGGCACCTTTTTCTTTTAAAGTCCACAACTTCATGGCAT
308242 C
61 C
* * * *
308243 CCTCTCAAGTCCACAACTCTATGGCACTTTTTTCTTTTAAAGTCCACAACT
1 CTTTTAAAGTCCACAACTCTATGGCACCTTTTTCTTTTAAAGTCCACAACT
308294 CTGTGGCATC
Statistics
Matches: 362, Mismatches: 44, Indels: 50
0.79 0.10 0.11
Matches are distributed among these distances:
55 21 0.06
58 5 0.01
59 26 0.07
60 96 0.27
61 18 0.05
62 6 0.02
64 4 0.01
65 23 0.06
66 70 0.19
67 46 0.13
68 47 0.13
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.38
Consensus pattern (61 bp):
CTTTTAAAGTCCACAACTCTATGGCACCTTTTTCTTTTAAAGTCCACAACTTCATGGCATC
Found at i:307998 original size:34 final size:33
Alignment explanation
Indices: 307791--308319 Score: 413
Period size: 33 Copynumber: 16.7 Consensus size: 33
307781 CAAGAATCCG
* *
307791 TGGCACATTTTTCTTTTAAAGTCCACAAC-TCTG
1 TGGCACCTTTTTCTTTTAAAGTCCACAACTTC-A
*
307824 TGGCACCATTTTT-TTTT-AAGTCCACAACTTCG
1 TGGCACC-TTTTTCTTTTAAAGTCCACAACTTCA
* *
307856 TGGCA-----TCCTTTT-AAGTCCATAAC-TCTA
1 TGGCACCTTTTTCTTTTAAAGTCCACAACTTC-A
*
307883 TGGCACCTTTTTCTTTTAAAGTCCACAACTCCA
1 TGGCACCTTTTTCTTTTAAAGTCCACAACTTCA
*
307916 TGGCATCTTTTTCTTTTAAAGTCCACAAC-TCTA
1 TGGCACCTTTTTCTTTTAAAGTCCACAACTTC-A
*
307949 TGGCATCTTTTTCTTTTAAAGTCCACAACTTCA
1 TGGCACCTTTTTCTTTTAAAGTCCACAACTTCA
* * * *
307982 TGGCGTCCTTTTTCTTTTTAAAGTCTACAACTCCG
1 TGGC-ACCTTTTTC-TTTTAAAGTCCACAACTTCA
* *
308017 CGGCACCTTTTT-TTTTAAACTCCACAACTTCA
1 TGGCACCTTTTTCTTTTAAAGTCCACAACTTCA
* *
308049 TGGCATCCTTTTTCTTTTTAAGTCCACAACTTCG
1 TGGCA-CCTTTTTCTTTTAAAGTCCACAACTTCA
* * * * *
308083 TGGCACCCTTGTTCTTTTTAAGTCTATAACTTCG
1 TGGCA-CCTTTTTCTTTTAAAGTCCACAACTTCA
**
308117 TGGCACC-----CTTTT-AAGTCCACAACTTTG
1 TGGCACCTTTTTCTTTTAAAGTCCACAACTTCA
*
308144 TGGCACCTTTTTCTTTTAAAGTCTACAACTTCA
1 TGGCACCTTTTTCTTTTAAAGTCCACAACTTCA
* *
308177 TGGCACCATTTT-TTTTAAAGTCCAAAAC-TCAA
1 TGGCACCTTTTTCTTTTAAAGTCCACAACTTC-A
* *
308209 TGGCACC-----CTTTTTAAGTCCACAACTCCA
1 TGGCACCTTTTTCTTTTAAAGTCCACAACTTCA
* *
308237 TGGCACC-----C-TCTCAAGTCCACAAC-TCTA
1 TGGCACCTTTTTCTTTTAAAGTCCACAACTTC-A
* *
308264 TGGCACTTTTTTCTTTTAAAGTCCACAAC-TCTG
1 TGGCACCTTTTTCTTTTAAAGTCCACAACTTC-A
* *
308297 TGGCATCTTTTTTCTTTTTAAGT
1 TGGCA-CCTTTTTCTTTTAAAGT
308320 TCGCAACTCT
Statistics
Matches: 414, Mismatches: 48, Indels: 67
0.78 0.09 0.13
Matches are distributed among these distances:
26 4 0.01
27 58 0.14
28 28 0.07
29 1 0.00
31 2 0.00
32 72 0.17
33 139 0.34
34 90 0.22
35 20 0.05
ACGTcount: A:0.23, C:0.26, G:0.11, T:0.40
Consensus pattern (33 bp):
TGGCACCTTTTTCTTTTAAAGTCCACAACTTCA
Found at i:308140 original size:27 final size:27
Alignment explanation
Indices: 308098--308269 Score: 105
Period size: 27 Copynumber: 5.9 Consensus size: 27
308088 CCCTTGTTCT
* * *
308098 TTTTAAGTCTATAACTTCGTGGCACCC
1 TTTTAAGTCCACAACTTCATGGCACCC
**
308125 TTTTAAGTCCACAACTTTGTGGCACCTTTTTC
1 TTTTAAGTCCACAACTTCATGGCACC-----C
* *
308157 TTTTAAAGTCTACAACTTCATGGCACCATTTT
1 TTTT-AAGTCCACAACTTCATGGCACC----C
*
308189 TTTTAAAGTCCAAAAC-TCAATGGCACCC
1 TTTT-AAGTCCACAACTTC-ATGGCACCC
*
308217 TTTTTAAGTCCACAACTCCATGGCACCC
1 -TTTTAAGTCCACAACTTCATGGCACCC
* *
308245 TCTCAAGTCCACAAC-TCTATGGCAC
1 TTTTAAGTCCACAACTTC-ATGGCAC
308270 TTTTTTCTTT
Statistics
Matches: 119, Mismatches: 16, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
26 1 0.01
27 43 0.36
28 19 0.16
29 5 0.04
31 2 0.02
32 30 0.25
33 19 0.16
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (27 bp):
TTTTAAGTCCACAACTTCATGGCACCC
Found at i:308342 original size:35 final size:34
Alignment explanation
Indices: 308249--308343 Score: 111
Period size: 34 Copynumber: 2.8 Consensus size: 34
308239 GCACCCTCTC
* *
308249 AAGTCCACAACTCTATGGCA-CTTTTTTCTTTTA
1 AAGTCCACAACTCTGTGGAACCTTTTTTCTTTTA
* * *
308282 AAGTCCACAACTCTGTGGCATCTTTTTTCTTTTT
1 AAGTCCACAACTCTGTGGAACCTTTTTTCTTTTA
* * *
308316 AAGTTCGCAACTCTGTGGAACCCTTTTT
1 AAGTCCACAACTCTGTGGAACCTTTTTT
308344 AAGTCCATAG
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 19 0.35
34 35 0.65
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (34 bp):
AAGTCCACAACTCTGTGGAACCTTTTTTCTTTTA
Found at i:308357 original size:28 final size:28
Alignment explanation
Indices: 308310--308368 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
308300 CATCTTTTTT
308310 CTTTTTAAGTTCGCAACTCTGTGGAACC
1 CTTTTTAAGTTCGCAACTCTGTGGAACC
*
308338 CTTTTTAAG-TC-CATAGCTCTGTGGCACC
1 CTTTTTAAGTTCGCA-A-CTCTGTGGAACC
308366 CTT
1 CTT
308369 GTAAATCCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 2 0.07
27 3 0.11
28 23 0.82
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37
Consensus pattern (28 bp):
CTTTTTAAGTTCGCAACTCTGTGGAACC
Found at i:308385 original size:27 final size:28
Alignment explanation
Indices: 308323--308396 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 28
308313 TTTAAGTTCG
* * *
308323 CAACTCTGTGGAACCCTTTTTAAGTCCA
1 CAACTCTGTGGCACCCTTTGTAAATCCA
* *
308351 TAGCTCTGTGGCACCC-TTGTAAATCCA
1 CAACTCTGTGGCACCCTTTGTAAATCCA
*
308378 CAACTCTGTGGCACTCTTT
1 CAACTCTGTGGCACCCTTT
308397 CAAAGCCCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 22 0.59
28 15 0.41
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (28 bp):
CAACTCTGTGGCACCCTTTGTAAATCCA
Found at i:308440 original size:33 final size:33
Alignment explanation
Indices: 308397--308711 Score: 332
Period size: 33 Copynumber: 9.6 Consensus size: 33
308387 GGCACTCTTT
*
308397 CAAAGCCCACACAAGTTAGTGGCAACCCTTCTC
1 CAAAGCCCACACAAGTTGGTGGCAACCCTTCTC
* *
308430 TAAAGCCCACACAAGTCGGTGGCAA-CCTTCTC
1 CAAAGCCCACACAAGTTGGTGGCAACCCTTCTC
** *
308462 CAAAGGTCACACAAGTTGGTGGCAACACTTCTC
1 CAAAGCCCACACAAGTTGGTGGCAACCCTTCTC
* * * ** *
308495 TAAAGCCTACACAAGTTGATAACAACCCCTCTC
1 CAAAGCCCACACAAGTTGGTGGCAACCCTTCTC
* *
308528 CAAAGCCCCCATAAGTTGGTGGCAACCCCTT-TC
1 CAAAGCCCACACAAGTTGGTGGCAA-CCCTTCTC
* *
308561 TAAAGCCCACACAAGTCGGTGGCAA-CCTTCTC
1 CAAAGCCCACACAAGTTGGTGGCAACCCTTCTC
* ** * *
308593 CAAAGCCCACATAAGTCAGTGACAACCCTTCCC
1 CAAAGCCCACACAAGTTGGTGGCAACCCTTCTC
* *
308626 CAAAGCCCACACAAGTCGATGGCAACCC-TCTC
1 CAAAGCCCACACAAGTTGGTGGCAACCCTTCTC
* ***
308658 CAAAGCCCATACAAGTCAATGGCAACCCTTCTC
1 CAAAGCCCACACAAGTTGGTGGCAACCCTTCTC
* *
308691 TAAAGCCCACACAAGTCGGTG
1 CAAAGCCCACACAAGTTGGTG
308712 ATCAGAATTC
Statistics
Matches: 232, Mismatches: 45, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
31 4 0.02
32 80 0.34
33 144 0.62
34 4 0.02
ACGTcount: A:0.31, C:0.35, G:0.16, T:0.18
Consensus pattern (33 bp):
CAAAGCCCACACAAGTTGGTGGCAACCCTTCTC
Found at i:308475 original size:65 final size:65
Alignment explanation
Indices: 308397--308711 Score: 398
Period size: 65 Copynumber: 4.8 Consensus size: 65
308387 GGCACTCTTT
*
308397 CAAAGCCCACACAAGTTAGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTC
1 CAAAGCCCACACAAGTTAGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTC
** * * * * * **
308462 CAAAGGTCACACAAGTTGGTGGCAACACTTCTCTAAAGCCTACACAAGTTGATAACAACCCCTCT
1 CAAAGCCCACACAAGTTAGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA-CCCTCT
308527 C
65 C
* * * *
308528 CAAAGCCCCCATAAGTTGGTGGCAACCCCTT-TCTAAAGCCCACACAAGTCGGTGGCAACCTTCT
1 CAAAGCCCACACAAGTTAGTGGCAA-CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTCT
308592 C
65 C
* * * * * *
308593 CAAAGCCCACATAAGTCAGTGACAACCCTTCCCCAAAGCCCACACAAGTCGATGGCAACCCTCTC
1 CAAAGCCCACACAAGTTAGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTC
* * *
308658 CAAAGCCCATACAAGTCAATGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTG
1 CAAAGCCCACACAAGTTAGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTG
308712 ATCAGAATTC
Statistics
Matches: 211, Mismatches: 36, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
64 5 0.02
65 153 0.73
66 49 0.23
67 4 0.02
ACGTcount: A:0.31, C:0.35, G:0.16, T:0.18
Consensus pattern (65 bp):
CAAAGCCCACACAAGTTAGTGGCAACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTC
Done.