Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 304 of 344
Found at i:100630676 original size:17 final size:18
Alignment explanation
Indices: 100630654--100630687 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
100630644 TAAAAGCTTA
100630654 TAAATATATAA-AAATTT
1 TAAATATATAATAAATTT
100630671 TAAATATATAATAAATT
1 TAAATATATAATAAATT
100630688 CTATTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAATATATAATAAATTT
Found at i:100630757 original size:17 final size:18
Alignment explanation
Indices: 100630725--100630768 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
100630715 ATTTAAAATT
*
100630725 TTATAAAAGCTTATAATTAA
1 TTATAAAA--TTATAATAAA
100630745 -TATAAAATTATAATAAA
1 TTATAAAATTATAATAAA
100630762 TTATAAA
1 TTATAAA
100630769 GAAAGATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 9 0.41
18 6 0.27
19 7 0.32
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (18 bp):
TTATAAAATTATAATAAA
Found at i:100637759 original size:3 final size:3
Alignment explanation
Indices: 100637751--100637775 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
100637741 TTTGTTTTTG
100637751 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
100637776 TTTAAATTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:100639597 original size:43 final size:43
Alignment explanation
Indices: 100639395--100639594 Score: 339
Period size: 43 Copynumber: 4.7 Consensus size: 43
100639385 GGAAAAAACC
*
100639395 CCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCG
1 CCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCG
* *
100639438 CCCCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCA
1 CCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCG
*
100639481 CCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGAG-AAAAGTG
1 CCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTG-GTAAAAGCG
*
100639524 CCGCTAAAGGTCAAGGCTTTTAGCGGCGCTTGTGGTAAAAGCG
1 CCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCG
100639567 CCGCTAAAGGTCAAGGCTTTTAGCGGCG
1 CCGCTAAAGGTCAAGGCTTTTAGCGGCG
100639595 CTTTTTTTAC
Statistics
Matches: 147, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
42 1 0.01
43 145 0.99
44 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (43 bp):
CCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCG
Found at i:100645512 original size:36 final size:36
Alignment explanation
Indices: 100645453--100645542 Score: 99
Period size: 36 Copynumber: 2.5 Consensus size: 36
100645443 CCTAACTACT
* * **
100645453 GTATACGTGAACAGTACTATATACATAAATAGTACC
1 GTATACGTGAATAGTGCCGTATACATAAATAGTACC
* * * **
100645489 GTATATGTGAATAGTGCCGTATACGTGAATAGTGTC
1 GTATACGTGAATAGTGCCGTATACATAAATAGTACC
100645525 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
100645543 ATAAATGGTC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.30
Consensus pattern (36 bp):
GTATACGTGAATAGTGCCGTATACATAAATAGTACC
Found at i:100645516 original size:18 final size:18
Alignment explanation
Indices: 100645480--100645542 Score: 99
Period size: 18 Copynumber: 3.5 Consensus size: 18
100645470 TATATACATA
* *
100645480 AATAGTACCGTATATGTG
1 AATAGTGCCGTATACGTG
100645498 AATAGTGCCGTATACGTG
1 AATAGTGCCGTATACGTG
*
100645516 AATAGTGTCGTATACGTG
1 AATAGTGCCGTATACGTG
100645534 AATAGTGCC
1 AATAGTGCC
100645543 ATAAATGGTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (18 bp):
AATAGTGCCGTATACGTG
Found at i:100647211 original size:24 final size:24
Alignment explanation
Indices: 100647183--100647231 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
100647173 ATTTATAGGT
100647183 TGAAATTCATAGTATATTTGACTA
1 TGAAATTCATAGTATATTTGACTA
100647207 TGAAATTCATAGTATATTTGACTA
1 TGAAATTCATAGTATATTTGACTA
100647231 T
1 T
100647232 AATAACTCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.43
Consensus pattern (24 bp):
TGAAATTCATAGTATATTTGACTA
Found at i:100656213 original size:35 final size:35
Alignment explanation
Indices: 100656174--100656242 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
100656164 AAATTTCCTA
100656174 AGATTAAAATGGACTAACAAATAACAAATAACTAT
1 AGATTAAAATGGACTAACAAATAACAAATAACTAT
*
100656209 AGATTAAAATGGGCTAACAAATAACAAATAACTA
1 AGATTAAAATGGACTAACAAATAACAAATAACTA
100656243 AGGAAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.57, C:0.12, G:0.10, T:0.22
Consensus pattern (35 bp):
AGATTAAAATGGACTAACAAATAACAAATAACTAT
Found at i:100660752 original size:30 final size:30
Alignment explanation
Indices: 100660712--100660768 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
100660702 ACGGCCATGA
*
100660712 CACACGGGCGTGTGGTCTACCCGTGTGTCT
1 CACACAGGCGTGTGGTCTACCCGTGTGTCT
* *
100660742 CACACAGGCGTGTGGTTTACCTGTGTG
1 CACACAGGCGTGTGGTCTACCCGTGTG
100660769 GAAGTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.26, G:0.33, T:0.28
Consensus pattern (30 bp):
CACACAGGCGTGTGGTCTACCCGTGTGTCT
Found at i:100662884 original size:94 final size:94
Alignment explanation
Indices: 100662779--100662967 Score: 360
Period size: 94 Copynumber: 2.0 Consensus size: 94
100662769 ACAATGGATC
*
100662779 AATATTAAACAAATTAACCTACATGATACCTACTTTTTCATTCCATGCAAATATAATATAAAAAT
1 AATATTAAACAAATTAACCTACATGATACCTACTTTTTCATTCCAGGCAAATATAATATAAAAAT
100662844 AATAAATAATGATATACATTATACAATAT
66 AATAAATAATGATATACATTATACAATAT
*
100662873 AATATTAAACAAATTAACCTACATGATACCTACTTTTTCATTCCAGGCACATATAATATAAAAAT
1 AATATTAAACAAATTAACCTACATGATACCTACTTTTTCATTCCAGGCAAATATAATATAAAAAT
100662938 AATAAATAATGATATACATTATACAATAT
66 AATAAATAATGATATACATTATACAATAT
100662967 A
1 A
100662968 CATTATCACT
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 93 1.00
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (94 bp):
AATATTAAACAAATTAACCTACATGATACCTACTTTTTCATTCCAGGCAAATATAATATAAAAAT
AATAAATAATGATATACATTATACAATAT
Found at i:100665085 original size:44 final size:44
Alignment explanation
Indices: 100664625--100665077 Score: 629
Period size: 44 Copynumber: 10.3 Consensus size: 44
100664615 TCAGGAATGT
* * *
100664625 CAAATCTTCTATCTTTGATCTGCTCTCTGACAATACGGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
* ** * * * *
100664669 CAAACCTATTATCTTTGATCTGCTTTCTGACAATACAAAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
* ** * *
100664713 CAAATTTATTATCTTCGATCTGGTCTCTGACAATTCAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
*
100664757 CAAATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
* *
100664801 CAAATCTGCCATCTTTGATCTGCTCTCTGACAATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
* * * *
100664845 CAAATTTGCTAACTTTGATCTTCTCTCTGACAATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
100664889 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG-TCGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAT-GC
100664933 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
* *
100664977 CAAATCTGCTATCTTCGATTTGCTCTCTGACAATACAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
* * * *
100665021 CAAATCTACTATCTTCGATCTGTTCTCTGACAATGCAGAGACGC
1 CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
*
100665065 CAAATCGGCTATC
1 CAAATCTGCTATC
100665078 GGTGATCTAC
Statistics
Matches: 369, Mismatches: 38, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
43 1 0.00
44 367 0.99
45 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (44 bp):
CAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGC
Found at i:100668857 original size:144 final size:144
Alignment explanation
Indices: 100668597--100668885 Score: 542
Period size: 144 Copynumber: 2.0 Consensus size: 144
100668587 GTCATCAACA
*
100668597 TACACCTCAATTTCTTTGTGCATCATATCGTGGAATAAAGTCACCATAGCCCTTTGATATGTTGC
1 TACACCTCAATTTCTTTGTGCATCATATCGTGGAATAAAGTCACCATAGCCCGTTGATATGTTGC
* *
100668662 CCCTGCATTCTTCAACCCAAAGGGCATTACCTTGTAACAGAAGGTGCTCCACAATGTTATGAAGG
66 CCCTGCATTCTTCAAACCAAAGGGCATTACCTTGTAACAAAAGGTGCTCCACAATGTTATGAAGG
100668727 TGGTTTTATCCATG
131 TGGTTTTATCCATG
*
100668741 TACACCTCAATTTCTTTGTGCATCATATCGTGGAATAAAGTCACCATAGCCCGTTGGTATGTTGC
1 TACACCTCAATTTCTTTGTGCATCATATCGTGGAATAAAGTCACCATAGCCCGTTGATATGTTGC
100668806 CCCTGCATTCTTCAAACCAAAGGGCATTACCTTGTAACAAAAGGTGCTCCACAATGTTATGAAGG
66 CCCTGCATTCTTCAAACCAAAGGGCATTACCTTGTAACAAAAGGTGCTCCACAATGTTATGAAGG
100668871 TGGTTTTATCCATG
131 TGGTTTTATCCATG
100668885 T
1 T
100668886 CCTCAATATG
Statistics
Matches: 141, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 141 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (144 bp):
TACACCTCAATTTCTTTGTGCATCATATCGTGGAATAAAGTCACCATAGCCCGTTGATATGTTGC
CCCTGCATTCTTCAAACCAAAGGGCATTACCTTGTAACAAAAGGTGCTCCACAATGTTATGAAGG
TGGTTTTATCCATG
Found at i:100677007 original size:26 final size:26
Alignment explanation
Indices: 100676956--100677008 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
100676946 TCAAACATGC
*
100676956 ATTTAGGTCAATTTAACTCTATGGGT
1 ATTTAGGTCAATTTAACTCTAGGGGT
* *
100676982 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACT-CTAGGGGT
100677008 A
1 A
100677009 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.42
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCTAGGGGT
Found at i:100678525 original size:26 final size:26
Alignment explanation
Indices: 100678494--100678601 Score: 146
Period size: 26 Copynumber: 4.2 Consensus size: 26
100678484 TGAAATGCCC
100678494 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
100678520 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
* * *
100678546 ATCATGGAATATTTTCCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* * *
100678572 ATCATGAAACATTTACCTAACCCTTT
1 ATCATGGAACATTTACCTAAACCATT
100678598 ATCA
1 ATCA
100678602 ATTTTTATCA
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
25 4 0.05
26 66 0.90
27 3 0.04
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:100678572 original size:52 final size:52
Alignment explanation
Indices: 100678494--100678601 Score: 164
Period size: 52 Copynumber: 2.1 Consensus size: 52
100678484 TGAAATGCCC
*
100678494 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAA-CCTATT
1 ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCT-TT
* * *
100678546 ATCATGGAATATTTTCCTAACCCATTATCATGAAACATTTACCTAACCCTTT
1 ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCTTT
100678598 ATCA
1 ATCA
100678602 ATTTTTATCA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 48 0.94
53 3 0.06
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.34
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACCCTTT
Found at i:100679800 original size:53 final size:53
Alignment explanation
Indices: 100679737--100679844 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
100679727 AAATAATAAA
100679737 TAATGATATACATTATACAATATAATATTAAACAAATTAACCTACATGATACC
1 TAATGATATACATTATACAATATAATATTAAACAAATTAACCTACATGATACC
100679790 TAATGATATACATTATACAATATAATATTAAACAAATTAACCTACATGATACC
1 TAATGATATACATTATACAATATAATATTAAACAAATTAACCTACATGATACC
100679843 TA
1 TA
100679845 CTTTTTCATT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (53 bp):
TAATGATATACATTATACAATATAATATTAAACAAATTAACCTACATGATACC
Found at i:100686278 original size:53 final size:53
Alignment explanation
Indices: 100686106--100686301 Score: 203
Period size: 53 Copynumber: 3.6 Consensus size: 53
100686096 AAGGACACAA
* * * *
100686106 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAG-TTCATAAGGCAAGGATACCAT
* * * * * * * *
100686160 GTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGACAAAGATCCCAT
1 GTAAGACCATGCCAAGGCATGGCATTGGT-AAGTTC-ATAAGGCAAGGATACCAT
* * *
100686215 GTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAGGATACCAC
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGCAAGGATACCAT
* * *
100686268 GTAAGACCATGTCAAGGCATGGCACTGTTAAGTT
1 GTAAGACCATGCCAAGGCATGGCATTGGTAAGTT
100686302 AAAAAGGAAA
Statistics
Matches: 113, Mismatches: 27, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 44 0.39
54 30 0.27
55 39 0.35
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (53 bp):
GTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGCAAGGATACCAT
Found at i:100694174 original size:26 final size:26
Alignment explanation
Indices: 100694143--100694250 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
100694133 TGAAATGCCC
*
100694143 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
100694169 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
100694195 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
100694221 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
100694247 ATCA
1 ATCA
100694251 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:100698543 original size:16 final size:16
Alignment explanation
Indices: 100698518--100698549 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
100698508 CATTCTTTAT
*
100698518 AAAATTTTTGTTTTTG
1 AAAATCTTTGTTTTTG
100698534 AAAATCTTTGTTTTTG
1 AAAATCTTTGTTTTTG
100698550 TAAACCCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.03, G:0.12, T:0.59
Consensus pattern (16 bp):
AAAATCTTTGTTTTTG
Found at i:100701286 original size:26 final size:26
Alignment explanation
Indices: 100701252--100701359 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
100701242 TGAAATGCCC
* *
100701252 ATCACGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
100701278 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
100701304 ATCATGGAATATTTACCTAATCCATC
1 ATCATGGAACATTTACCTAACCCATT
*
100701330 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
100701356 ATCA
1 ATCA
100701360 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:100703079 original size:14 final size:13
Alignment explanation
Indices: 100703060--100703115 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 13
100703050 AAAATATGTA
100703060 ATAATATAAATCAT
1 ATAATATAAAT-AT
100703074 ATAATAATTAAATAT
1 ATAAT-A-TAAATAT
100703089 ATGTAATA-AAATAT
1 A--TAATATAAATAT
100703103 ATAATAT-AATAT
1 ATAATATAAATAT
100703115 A
1 A
100703116 AGAAGAATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
12 11 0.30
14 12 0.32
15 4 0.11
16 6 0.16
17 4 0.11
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (13 bp):
ATAATATAAATAT
Found at i:100703080 original size:17 final size:16
Alignment explanation
Indices: 100703046--100703371 Score: 75
Period size: 16 Copynumber: 20.4 Consensus size: 16
100703036 ATAATTTACA
* *
100703046 AATAAAAATATGTAAT
1 AATATAAATATATAAT
100703062 AATATAAATCATATAAT
1 AATATAAAT-ATATAAT
*
100703079 AAT-TAAATATAT-GT
1 AATATAAATATATAAT
100703093 AATA-AAATATATAAT
1 AATATAAATATATAAT
* *
100703108 -ATAATATAAGA-AGAAT
1 AAT-ATA-AATATATAAT
100703124 -ATATAAA-ATAATAAT
1 AATATAAATAT-ATAAT
* **
100703139 AATCT-AATAGGTAATT
1 AATATAAATATATAA-T
* * *
100703155 CATATAAAAATATAGT
1 AATATAAATATATAAT
* *
100703171 AAAATAATTGATAT-AT
1 AATATAAAT-ATATAAT
* * *
100703187 -ATAGAAAATACATAGT
1 AATA-TAAATATATAAT
* *
100703203 -ATTTACTAAT-T-TTAT
1 AATATA--AATATATAAT
*
100703218 AA-ATAAATATGTAAT
1 AATATAAATATATAAT
*
100703233 AATATGAATA-ATATAT
1 AATATAAATATATA-AT
100703249 AATATATAATATATAA-
1 AATATA-AATATATAAT
*
100703265 AA-ATAACATGTACTAA-
1 AATATAA-ATATA-TAAT
* *
100703281 AACATATAATATAGATAT
1 AATATA-AATATATA-AT
100703299 AA-AT-AATATATATAT
1 AATATAAATATATA-AT
100703314 ATATATATAATATATAAT
1 A-ATATA-AATATATAAT
*
100703332 AAAAATTAAACATATATAAT
1 -AATA-T-AA-ATATATAAT
*
100703352 AATAT-AATAGATAA-
1 AATATAAATATATAAT
100703366 AATATA
1 AATATA
100703372 GTAAAATAAA
Statistics
Matches: 228, Mismatches: 43, Indels: 79
0.65 0.12 0.23
Matches are distributed among these distances:
13 4 0.02
14 23 0.10
15 60 0.26
16 65 0.29
17 41 0.18
18 11 0.05
19 14 0.06
20 10 0.04
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.35
Consensus pattern (16 bp):
AATATAAATATATAAT
Found at i:100703096 original size:34 final size:34
Alignment explanation
Indices: 100703048--100703113 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
100703038 AATTTACAAA
* *
100703048 TAAAAATATGTAATAATATAAATCATATAATAAT
1 TAAAAATATGTAATAAAATAAATAATATAATAAT
* *
100703082 TAAATATATGTAATAAAATATATAATATAATA
1 TAAAAATATGTAATAAAATAAATAATATAATA
100703114 TAAGAAGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (34 bp):
TAAAAATATGTAATAAAATAAATAATATAATAAT
Found at i:100703288 original size:34 final size:32
Alignment explanation
Indices: 100703250--100703390 Score: 89
Period size: 34 Copynumber: 4.4 Consensus size: 32
100703240 ATAATATATA
*
100703250 ATATATAATATATAAAAATAACATGTACTAAAAC
1 ATATATAATATATAAAAATAACATATA-T-AAAC
* * * * *
100703284 ATATA-ATATAGATATAAATAATATATATATAT
1 ATATATA-ATATATAAAAATAACATATATAAAC
*
100703316 ATATATAATATAT---AATAA-AAAT-TAAAC
1 ATATATAATATATAAAAATAACATATATAAAC
* *
100703343 ATATATAATAATATAATAGATAAAATATAGTAAA-
1 ATATATAAT-ATATAA-AAATAACATATA-TAAAC
*
100703377 ATAAATAATATATA
1 ATATATAATATATA
100703391 TAATGAAAAT
Statistics
Matches: 84, Mismatches: 13, Indels: 21
0.71 0.11 0.18
Matches are distributed among these distances:
27 12 0.14
28 7 0.08
29 5 0.06
32 16 0.19
33 11 0.13
34 29 0.35
35 4 0.05
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (32 bp):
ATATATAATATATAAAAATAACATATATAAAC
Found at i:100703306 original size:15 final size:14
Alignment explanation
Indices: 100703286--100703393 Score: 63
Period size: 13 Copynumber: 8.0 Consensus size: 14
100703276 ACTAAAACAT
100703286 ATAATATAGATATAA
1 ATAATATA-ATATAA
*
100703301 ATAATAT-ATATAT
1 ATAATATAATATAA
100703314 ATATATATAATATATA
1 ATA-ATATAATATA-A
100703330 ATAA-A-AAT-TAA
1 ATAATATAATATAA
* *
100703341 ACATATATAATA-AT
1 ATA-ATATAATATAA
*
100703355 ATAATA-GATA-AA
1 ATAATATAATATAA
*
100703367 AT-ATAGTAAAATAA
1 ATAATA-TAATATAA
100703381 ATAATAT-ATATAA
1 ATAATATAATATAA
100703394 TGAAAATACA
Statistics
Matches: 72, Mismatches: 10, Indels: 24
0.68 0.09 0.23
Matches are distributed among these distances:
11 6 0.08
12 9 0.12
13 22 0.31
14 16 0.22
15 16 0.22
16 3 0.04
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (14 bp):
ATAATATAATATAA
Found at i:100703348 original size:2 final size:2
Alignment explanation
Indices: 100703284--100703329 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
100703274 GTACTAAAAC
* *
100703284 AT AT A- AT AT AG AT AT AA AT A- AT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100703323 AT AT AT A
1 AT AT AT A
100703330 ATAAAAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
1 3 0.08
2 34 0.92
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (2 bp):
AT
Found at i:100703392 original size:35 final size:36
Alignment explanation
Indices: 100703314--100703394 Score: 96
Period size: 35 Copynumber: 2.3 Consensus size: 36
100703304 ATATATATAT
* * *
100703314 ATATATATAATATATAATAAAAATTAAACATATATA
1 ATATATATAATAGATAATAAAAAGTAAACATAAATA
*
100703350 ATA-ATATAATAGATAA-AATATAGTAAA-ATAAATA
1 ATATATATAATAGATAATAA-AAAGTAAACATAAATA
100703384 ATATATATAAT
1 ATATATATAAT
100703395 GAAAATACAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
34 11 0.28
35 25 0.64
36 3 0.08
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (36 bp):
ATATATATAATAGATAATAAAAAGTAAACATAAATA
Found at i:100705476 original size:289 final size:289
Alignment explanation
Indices: 100705078--100705735 Score: 1077
Period size: 289 Copynumber: 2.3 Consensus size: 289
100705068 TGCCTCTTCA
* * * * * * **
100705078 ATTTGTTCTCTGACAATACAAAGATGCTAAATCATCCTAGATTTGCTTCAATATAAACATTTGAA
1 ATTTTTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACACGTGAA
*
100705143 AGCCAAATCAGCTATGGTTTCAATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGATT
66 AGCCAAATCAGCTATGGTTTCAATTTGTTCCTTGTAAACACAAGAACACCAAATCATCTTGGATT
* * *
100705208 TGTTTGAGAACATCTGAGAGTTAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAAT
131 TGCTTGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCATTGTAAACACAAGAAT
*
100705273 GCCAAATCATCTTGGATCTGCTTC-CGTATAAACATCTGAAGGTTAGATCTACTATGTGTCTGCC
196 GCCAAATCATCTTGGATCTGCTTCAC-TATAAACATCTAAAGGTTAGATCTACTATGTGTCTGCC
100705337 CTCCGTCGAATATGGAGACGCCAAACTTTG
260 CTCCGTCGAATATGGAGACGCCAAACTTTG
* * *
100705367 ATTTTTTCTCTAACAATGCAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAA
1 ATTTTTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACACGTGAA
* *
100705432 AACCAAATCAGCTATGGTTTCAATTTGTTCCTTGTAAACACAAGAACACCAAATCTTCTTGGATT
66 AGCCAAATCAGCTATGGTTTCAATTTGTTCCTTGTAAACACAAGAACACCAAATCATCTTGGATT
* *
100705497 TGCTTGAGAACATCTGAGAGTCAAATCTTCTATGTCCTCGATTTGTTCATTGTAAACACGAGAAT
131 TGCTTGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCATTGTAAACACAAGAAT
*
100705562 GCCAAATCATCTTGGATCTGCTTCACTATAAACATCTAAAGGTTAGATCTGCTATGTGTCTGCCC
196 GCCAAATCATCTTGGATCTGCTTCACTATAAACATCTAAAGGTTAGATCTACTATGTGTCTGCCC
100705627 TCCGTCGAATATGGAGACGCCAAACTTTG
261 TCCGTCGAATATGGAGACGCCAAACTTTG
* *
100705656 ATTTGTTT-TTTGACAATACAGAGATGCCAAATCATCTTAGACTTACTTCAACATAAACACGTGA
1 ATTT-TTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACACGTGA
100705720 AAGCCAAATCAGCTAT
65 AAGCCAAATCAGCTAT
100705736 ATCTTCGATC
Statistics
Matches: 340, Mismatches: 27, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
289 336 0.99
290 4 0.01
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (289 bp):
ATTTTTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACATAAACACGTGAA
AGCCAAATCAGCTATGGTTTCAATTTGTTCCTTGTAAACACAAGAACACCAAATCATCTTGGATT
TGCTTGAGAACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCATTGTAAACACAAGAAT
GCCAAATCATCTTGGATCTGCTTCACTATAAACATCTAAAGGTTAGATCTACTATGTGTCTGCCC
TCCGTCGAATATGGAGACGCCAAACTTTG
Found at i:100717807 original size:14 final size:13
Alignment explanation
Indices: 100717788--100717843 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 13
100717778 AAAATATGTA
100717788 ATAATATAAATCAT
1 ATAATATAAAT-AT
100717802 ATAATAATAAAATAT
1 ATAAT-AT-AAATAT
100717817 ATGTAATA-AAATAT
1 A--TAATATAAATAT
100717831 ATAATAT-AATAT
1 ATAATATAAATAT
100717843 A
1 A
100717844 AGAAGAATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
12 11 0.30
14 12 0.32
15 5 0.14
16 5 0.14
17 4 0.11
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (13 bp):
ATAATATAAATAT
Found at i:100717808 original size:17 final size:15
Alignment explanation
Indices: 100717778--100717836 Score: 75
Period size: 14 Copynumber: 3.9 Consensus size: 15
100717768 TTTACAAATA
*
100717778 AAAATATGTAATAAT
1 AAAATATATAATAAT
100717793 ATAAATCATATAATAAT
1 A-AAAT-ATATAATAAT
*
100717810 AAAATATAT-GTAAT
1 AAAATATATAATAAT
100717824 AAAATATATAATA
1 AAAATATATAATA
100717837 TAATATAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
14 13 0.34
15 7 0.18
16 8 0.21
17 10 0.26
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (15 bp):
AAAATATATAATAAT
Found at i:100717824 original size:34 final size:33
Alignment explanation
Indices: 100717774--100717841 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
100717764 ATAATTTACA
* *
100717774 AATAAAAATATGTAATAATATAAATCATATAAT
1 AATAAAAATATGTAATAAAATAAATAATATAAT
*
100717807 AATAAAATATATGTAATAAAATATATAATATAAT
1 AATAAAA-ATATGTAATAAAATAAATAATATAAT
100717841 A
1 A
100717842 TAAGAAGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
33 7 0.23
34 24 0.77
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (33 bp):
AATAAAAATATGTAATAAAATAAATAATATAAT
Found at i:100717835 original size:12 final size:12
Alignment explanation
Indices: 100717800--100717843 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
100717790 AATATAAATC
100717800 ATATAATAATAAA
1 ATAT-ATAATAAA
100717813 ATATATGTAATAAA
1 ATATA--TAATAAA
*
100717827 ATATATAATATA
1 ATATATAATAAA
100717839 ATATA
1 ATATA
100717844 AGAAGAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 12 0.43
13 4 0.14
14 12 0.43
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (12 bp):
ATATATAATAAA
Found at i:100718233 original size:18 final size:18
Alignment explanation
Indices: 100718166--100718344 Score: 256
Period size: 18 Copynumber: 9.9 Consensus size: 18
100718156 ATAATCTTCA
100718166 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
100718185 GTGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
100718204 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
100718221 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
100718239 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
100718256 ATGACTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
100718274 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
100718291 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
100718309 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
100718327 ATGATATACAATCTTAGA
1 ATGAT-TGCAATCTTAGA
100718345 AGATATGATT
Statistics
Matches: 147, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
17 48 0.33
18 67 0.46
19 32 0.22
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:100718236 original size:35 final size:35
Alignment explanation
Indices: 100718174--100718344 Score: 279
Period size: 35 Copynumber: 4.8 Consensus size: 35
100718164 CAATGATATG
*
100718174 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
100718210 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
*
100718245 CAATCTTAGATATGACTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
*
100718280 CAATCTTAGATATGATTGCAATCTTAGATATGATTG
1 CAATCTTAGATATGATTGCAATCTTAGATATGA-TA
*
100718316 CAATCTTAGATATGATATACAATCTTAGA
1 CAATCTTAGATATGAT-TGCAATCTTAGA
100718345 AGATATGATT
Statistics
Matches: 128, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
35 85 0.66
36 32 0.25
37 11 0.09
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:100718851 original size:18 final size:17
Alignment explanation
Indices: 100718827--100718886 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
100718817 CCAATATATT
100718827 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
100718844 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
100718860 -TATATTTTTTATTATATA
1 TTATATTTTTTA-TATA-A
100718878 TTATATTTT
1 TTATATTTT
100718887 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 12 0.34
18 1 0.03
19 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:100718871 original size:15 final size:16
Alignment explanation
Indices: 100718828--100718886 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
100718818 CAATATATTT
100718828 TATATTTTTTATATAA
1 TATATTTTTTATATAA
100718844 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
100718860 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
100718878 TTATATTTT
1 -TATATTTT
100718887 AAATTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.19
16 10 0.28
17 10 0.28
18 1 0.03
19 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:100718911 original size:26 final size:26
Alignment explanation
Indices: 100718863--100718912 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
100718853 TTATAAATAT
* * * *
100718863 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
100718889 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
100718913 TTATATGCTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:100725950 original size:44 final size:43
Alignment explanation
Indices: 100725801--100726120 Score: 258
Period size: 44 Copynumber: 7.3 Consensus size: 43
100725791 ATGTAGATCA
*
100725801 AAGA-AACAAGATTTGGCATCCCTGTGTTTATAGGGAATAGTTCG
1 AAGATAAC-AGATTTGGCATCCCTGTGTTTATAGGGAACAG-TCG
* * * * *
100725845 AAGATAACAGATCTGACA-CTCCTGTGCTTACAGCGAAGCAGATCG
1 AAGATAACAGATTTGGCATC-CCTGTGTTTATAGGGAA-CAG-TCG
* ** * *
100725890 AGGATTTCAGCA--TGGCATCCCTGTGTTTACAGGGAACAAGTTG
1 AAGATAACAG-ATTTGGCATCCCTGTGTTTATAGGGAAC-AGTCG
*
100725933 AAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCG
1 AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAG-TCG
* * * * * *
100725977 AAGATAATAGATTTGACA-CTCCTGTGCTTACAGCGAAGCAAATCG
1 AAGATAACAGATTTGGCATC-CCTGTGTTTATAGGGAA-C-AGTCG
* ** *
100726022 AGGATTTCAGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTG
1 AAGATAACAG-ATTTGGCATCCCTGTGTTTATAGGGAAC-AGTCG
*
100726065 AAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCG
1 AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAG-TCG
100726109 AAGATAACAGAT
1 AAGATAACAGAT
100726121 CTGACACTTC
Statistics
Matches: 218, Mismatches: 41, Indels: 34
0.74 0.14 0.12
Matches are distributed among these distances:
42 2 0.01
43 28 0.13
44 158 0.72
45 27 0.12
46 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (43 bp):
AAGATAACAGATTTGGCATCCCTGTGTTTATAGGGAACAGTCG
Found at i:100726246 original size:132 final size:132
Alignment explanation
Indices: 100725809--100726209 Score: 658
Period size: 132 Copynumber: 3.0 Consensus size: 132
100725799 CAAAGAAACA
* *
100725809 AGATTTGGCATCCCTGTGTTTATAGGGAATAGTTCGAAGATAACAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
*
100725874 ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTACAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTAAAGGGAACAAGTTGAAGATA
100725939 GC
131 GC
* *
100725941 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAATAGATTTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
* *
100726006 ACAGCGAAGCAAATCGAGGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTAAAGGGAACAAGTTGAAGATA
100726071 GC
131 GC
* *
100726073 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTTCTATGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
* * * * * *
100726138 ACAGCGAAGTAGATCGAAGATTTCAGCATGGTATCCCTCTGTTTAAAGGGGACAAGTTGAAGACA
66 ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTAAAGGGAACAAGTTGAAGATA
*
100726203 AC
131 GC
100726205 AGATT
1 AGATT
100726210 CGACATCTCT
Statistics
Matches: 250, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 250 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCCTGTGTTTAAAGGGAACAAGTTGAAGATA
GC
Found at i:100727166 original size:39 final size:39
Alignment explanation
Indices: 100727102--100727177 Score: 125
Period size: 39 Copynumber: 1.9 Consensus size: 39
100727092 AAATTAACTA
* *
100727102 ATTCGTCAGTGCTACTAAAGTTAACCCTAATCTATTTTC
1 ATTCATCAGCGCTACTAAAGTTAACCCTAATCTATTTTC
*
100727141 ATTCATCAGCGCTACTAAAGTTAACCCTAATTTATTT
1 ATTCATCAGCGCTACTAAAGTTAACCCTAATCTATTT
100727178 AGTCCAGATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.38
Consensus pattern (39 bp):
ATTCATCAGCGCTACTAAAGTTAACCCTAATCTATTTTC
Found at i:100733208 original size:26 final size:26
Alignment explanation
Indices: 100733160--100733210 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
100733150 TCATTATATA
*
100733160 TATTATTTATTTTACTATATTTAATC
1 TATTATTTATTATACTATATTTAATC
*
100733186 TATTATATTATTATA-TATGTTTAAT
1 TATTAT-TTATTATACTATATTTAAT
100733211 TTTTATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (26 bp):
TATTATTTATTATACTATATTTAATC
Found at i:100733233 original size:13 final size:13
Alignment explanation
Indices: 100733211--100733256 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
100733201 TATGTTTAAT
100733211 TTTTAT-TATATA
1 TTTTATATATATA
100733223 TTTTATATATATA
1 TTTTATATATATA
*
100733236 TTATT-TATATCTA
1 TT-TTATATATATA
*
100733249 TATTATAT
1 TTTTATAT
100733257 GTTTTAGCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 8 0.28
13 19 0.66
14 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTATATATATA
Found at i:100733255 original size:20 final size:21
Alignment explanation
Indices: 100733186--100733256 Score: 67
Period size: 20 Copynumber: 3.4 Consensus size: 21
100733176 ATATTTAATC
* *
100733186 TATTATATTATTATATATGTT
1 TATTATATTATTATATATCTA
*
100733207 TAATT-T-TTATTATATATTTTA
1 T-ATTATATTATTATATA-TCTA
100733228 TATATATATTATT-TATATCTA
1 TAT-TATATTATTATATATCTA
100733249 TATTATAT
1 TATTATAT
100733257 GTTTTAGCAC
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
20 17 0.40
21 12 0.29
22 8 0.19
23 5 0.12
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (21 bp):
TATTATATTATTATATATCTA
Found at i:100734542 original size:17 final size:17
Alignment explanation
Indices: 100734487--100734542 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
100734477 TAAATTTAAA
100734487 ATATAATATATAATAAAA-
1 ATATAAT-TAT-ATAAAAT
100734505 ATAT-ATT-TATAAGAAT
1 ATATAATTATATAA-AAT
100734521 A-ATAATTATATAAAAT
1 ATATAATTATATAAAAT
100734537 ATATAA
1 ATATAA
100734543 AATATATTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
14 4 0.12
15 5 0.15
16 9 0.27
17 11 0.33
18 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
ATATAATTATATAAAAT
Found at i:100735061 original size:18 final size:18
Alignment explanation
Indices: 100735025--100735186 Score: 229
Period size: 18 Copynumber: 8.9 Consensus size: 18
100735015 AATCATAACT
*
100735025 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
*
100735044 TCAAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
100735062 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
100735080 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
100735098 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
*
100735115 TCTTAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
100735133 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
*
100735150 TCTAAGATTGCATATCACA
1 TCTAAGATTGCA-ATCATA
100735169 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
100735187 TGAAGATTAT
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
17 31 0.24
18 66 0.51
19 32 0.25
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:100735123 original size:71 final size:72
Alignment explanation
Indices: 100735025--100735186 Score: 247
Period size: 71 Copynumber: 2.2 Consensus size: 72
100735015 AATCATAACT
100735025 TCTAAGATTGTATATCATATCAAAGATTGCAATCATATCTAAGATTGCAATCATATCTAAGATTG
1 TCTAAGATTG-ATATCATATCAAAGATTGCAATCATATCTAAGATTG-AATCATATCTAAGATTG
*
100735090 CA-ATCATA
64 CATATCACA
** *
100735098 TCTAAGATTG-TATCATATCTTAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCA
1 TCTAAGATTGATATCATATCAAAGATTGCAATCATATCTAAGATTGAATCATATCTAAGATTGCA
100735162 TATCACA
66 TATCACA
100735169 TCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCAT
100735187 TGAAGATTAT
Statistics
Matches: 82, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
70 18 0.22
71 48 0.59
73 16 0.20
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (72 bp):
TCTAAGATTGATATCATATCAAAGATTGCAATCATATCTAAGATTGAATCATATCTAAGATTGCA
TATCACA
Found at i:100735194 original size:36 final size:37
Alignment explanation
Indices: 100735025--100735186 Score: 244
Period size: 35 Copynumber: 4.5 Consensus size: 37
100735015 AATCATAACT
* *
100735025 TCTAAGATTGTATATCATATCAAAGATTGCAATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
100735062 TCTAAGATTGCA-ATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
*
100735098 TCTAAGATTG--TATCATATCTTAGATTGCAATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
*
100735133 TCTAAGATTG--TATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATATCTAAGATTGCA-ATCATA
100735169 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
100735187 TGAAGATTAT
Statistics
Matches: 116, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
35 51 0.44
36 48 0.41
37 11 0.09
38 6 0.05
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (37 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATA
Found at i:100735906 original size:205 final size:205
Alignment explanation
Indices: 100735549--100736065 Score: 854
Period size: 205 Copynumber: 2.5 Consensus size: 205
100735539 AAATTAACTT
* * * * * * * **
100735549 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACACTACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAATAC
* * *
100735614 GTGAAAGCCAAATCGGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAAGATGCCAAACCATATT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAGATACCAAACCATATT
*
100735679 GGATCTGCTTCAGCATAAACATCTGAAGGTGAGATCTGCCATGTATCTGCTCTCCATTGAAGTGG
131 GGATCTGCTTCAGCATAAACATCTGAAGGTGAGATCTGCCATGTATCTGCTCTCCATTGAAGTAG
100735744 AGATGCCAGA
196 AGATGCCAGA
100735754 CTTCGATTTGTTCTCTGACACTACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAATAC
1 CTTCGATTTGTTCTCTGACACTACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAATAC
* * *
100735819 GTGAAAGCTAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAGATACCAAACCATATT
* *
100735884 GGATCTGCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCTCTATTGAAGTAG
131 GGATCTGCTTCAGCATAAACATCTGAAGGTGAGATCTGCCATGTATCTGCTCTCCATTGAAGTAG
100735949 AGATGCCAGA
196 AGATGCCAGA
* *
100735959 CTTCGATTTGTTCTTTGACACTACAGAGACGACAAATCATCTTAGATATGCTTCATCGTAAATAC
1 CTTCGATTTGTTCTCTGACACTACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAATAC
100736024 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAA
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAA
100736066 CTACCAGTGC
Statistics
Matches: 291, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
205 291 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACACTACAGAGACGACAAATCATCTTAGATTTGCTTCATCGTAAATAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAGATACCAAACCATATT
GGATCTGCTTCAGCATAAACATCTGAAGGTGAGATCTGCCATGTATCTGCTCTCCATTGAAGTAG
AGATGCCAGA
Found at i:100739257 original size:45 final size:45
Alignment explanation
Indices: 100739204--100739349 Score: 122
Period size: 45 Copynumber: 3.3 Consensus size: 45
100739194 AGGATAATGG
*
100739204 CTTCAATCTGCTTCATCGTAACTTCAGGAAGACAAGATCTATTGT
1 CTTCAATCTGCTTCATCGTAACTTCAGGAAGACAAGATCTACTGT
* * * * *
100739249 CTTCAATCTG-TT--TCGCTACAATCTCAGGGAGGCAAG-GCTAGTGT
1 CTTCAATCTGCTTCATCG-TA-ACT-TCAGGAAGACAAGATCTACTGT
* * * *
100739293 CTTCAATCTGCTTCA-CTGTAACTTTAGAAAGACAAAATCTACTAT
1 CTTCAATCTGCTTCATC-GTAACTTCAGGAAGACAAGATCTACTGT
*
100739338 CTTCAGTCTGCT
1 CTTCAATCTGCT
100739350 CCACTGGAAA
Statistics
Matches: 78, Mismatches: 15, Indels: 16
0.72 0.14 0.15
Matches are distributed among these distances:
42 3 0.04
43 2 0.03
44 28 0.36
45 41 0.53
46 3 0.04
47 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.33
Consensus pattern (45 bp):
CTTCAATCTGCTTCATCGTAACTTCAGGAAGACAAGATCTACTGT
Found at i:100739298 original size:89 final size:88
Alignment explanation
Indices: 100739204--100739508 Score: 342
Period size: 89 Copynumber: 3.4 Consensus size: 88
100739194 AGGATAATGG
* ** * * *
100739204 CTTCAATCTGCTTCA-TCGTAACTTCAGGAAGACAAGATCTATTGTCTTCAATCTGTTTCGCTAC
1 CTTCAATCTGCTTCACT-GCAACTTCAAAAAGACAAGATCTATT-TCTTCAGTCTGCTCCGCTAC
* *
100739268 AATCTCAGGGAGGCAAGGCTAGTGT
64 AAACTCAGGGAGGCAAGGCTAGTAT
* * * * * * **
100739293 CTTCAATCTGCTTCACTGTAACTTTAGAAAGACAAAATCTACTATCTTCAGTCTGCTCCACTGGA
1 CTTCAATCTGCTTCACTGCAACTTCAAAAAGACAAGATCTA-TTTCTTCAGTCTGCTCCGCTACA
*
100739358 AACTCAGGGAGGCAAGGCTGGTAT
65 AACTCAGGGAGGCAAGGCTAGTAT
* * * *
100739382 CTTCGATCTGATTCACTGCAACTTCAAAAAGACAAGATCTACTTTCTTCAGTCTACTCCGCTGCA
1 CTTCAATCTGCTTCACTGCAACTTCAAAAAGACAAGATCTA-TTTCTTCAGTCTGCTCCGCTACA
* *
100739447 AACTCAGGGAGGCAAGGTTGGTAT
65 AACTCAGGGAGGCAAGGCTAGTAT
* *
100739471 CTTCAATCTACTTCACTGCAACTTCAAGAAGACAAGAT
1 CTTCAATCTGCTTCACTGCAACTTCAAAAAGACAAGAT
100739509 TTGCTGAATT
Statistics
Matches: 186, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
89 184 0.99
90 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (88 bp):
CTTCAATCTGCTTCACTGCAACTTCAAAAAGACAAGATCTATTTCTTCAGTCTGCTCCGCTACAA
ACTCAGGGAGGCAAGGCTAGTAT
Found at i:100740773 original size:51 final size:51
Alignment explanation
Indices: 100740698--100740801 Score: 172
Period size: 51 Copynumber: 2.0 Consensus size: 51
100740688 TTTATTTTTA
100740698 TTTTTTTACAAGGTCTCAAAGCGCCCTTTGTGAGTTTTCACCTTGGCCCCT
1 TTTTTTTACAAGGTCTCAAAGCGCCCTTTGTGAGTTTTCACCTTGGCCCCT
* * * *
100740749 TTTTTTTAGAAGGTCTCAAAGCGCCCTTTGTGGGTTTTCACTTTGGCCTCT
1 TTTTTTTACAAGGTCTCAAAGCGCCCTTTGTGAGTTTTCACCTTGGCCCCT
100740800 TT
1 TT
100740802 CCCTTTTTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.42
Consensus pattern (51 bp):
TTTTTTTACAAGGTCTCAAAGCGCCCTTTGTGAGTTTTCACCTTGGCCCCT
Found at i:100741008 original size:27 final size:27
Alignment explanation
Indices: 100740970--100741023 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
100740960 TTTGTATGGG
100740970 AAAGATCTTTTTCAATACTAGGTCCCC
1 AAAGATCTTTTTCAATACTAGGTCCCC
100740997 AAAGATCTTTTTCAATACTAGGTCCCC
1 AAAGATCTTTTTCAATACTAGGTCCCC
100741024 CTCATGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (27 bp):
AAAGATCTTTTTCAATACTAGGTCCCC
Found at i:100750943 original size:28 final size:28
Alignment explanation
Indices: 100750912--100750998 Score: 70
Period size: 28 Copynumber: 3.0 Consensus size: 28
100750902 AACTGGGCCT
100750912 TAGCCCATATCAATATTAATCTGGGTCA
1 TAGCCCATATCAATATTAATCTGGGTCA
* * *
100750940 TAGCCCCT-TACAATATCAGAGTATACTGGG-CC
1 TAGCCCATAT-CAATAT--TA--AT-CTGGGTCA
*
100750972 TAGCCCATATCAGTATTAATCTGGGTC
1 TAGCCCATATCAATATTAATCTGGGTC
100750999 GAAGCCCTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
27 6 0.13
28 16 0.36
30 2 0.04
32 15 0.33
33 6 0.13
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (28 bp):
TAGCCCATATCAATATTAATCTGGGTCA
Found at i:100751012 original size:61 final size:61
Alignment explanation
Indices: 100750893--100751013 Score: 176
Period size: 60 Copynumber: 2.0 Consensus size: 61
100750883 CTATTCAGAA
*
100750893 ATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAATCTGGGTCATAGCCCCTTACAAT
1 ATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAATCTGGGTCATAGCCCATTACAAT
*
100750954 ATCAGAG-TATACTGGGCC-TAGCCCATATCAGTATTAATCTGGGTCGA-AGCCCTATTACAA
1 ATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATTAATCTGGGTC-ATAGCCC-ATTACAA
100751014 GTCGAGATAT
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
60 33 0.60
61 22 0.40
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (61 bp):
ATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAATCTGGGTCATAGCCCATTACAAT
Found at i:100752438 original size:49 final size:49
Alignment explanation
Indices: 100752365--100752651 Score: 353
Period size: 49 Copynumber: 5.8 Consensus size: 49
100752355 TAGCCGAAGC
* *
100752365 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * * *
100752414 AATCTGGTACACGTAGTAGCCTGCA-TTAGTACTACACACGTGATCACAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * *
100752464 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
100752513 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* *
100752564 T-TTCGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCG-GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
*
100752613 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
100752652 CTTGACCTCA
Statistics
Matches: 201, Mismatches: 30, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
48 16 0.08
49 99 0.49
50 32 0.16
51 54 0.27
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:100752603 original size:100 final size:100
Alignment explanation
Indices: 100752371--100752652 Score: 530
Period size: 100 Copynumber: 2.8 Consensus size: 100
100752361 AAGCTATCTG
* *
100752371 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
*
100752436 GCA-TTAGTACTACACACGTGATCACAGTTTTCGG
66 GCACTTAGTACTACACACGTGATCACAGTTTTCGA
100752470 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
100752535 GCACTTAGTACTACACACGTGATCACAGTTTTCGA
66 GCACTTAGTACTACACACGTGATCACAGTTTTCGA
100752570 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
100752635 GCACTTAGTACTACACAC
66 GCACTTAGTACTACACAC
100752653 TTGACCTCAC
Statistics
Matches: 179, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
99 66 0.37
100 113 0.63
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (100 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCT
GCACTTAGTACTACACACGTGATCACAGTTTTCGA
Found at i:100757010 original size:19 final size:19
Alignment explanation
Indices: 100756974--100757012 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
100756964 TTTTCATCAT
* *
100756974 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
100756993 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
100757012 A
1 A
100757013 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:100757562 original size:28 final size:27
Alignment explanation
Indices: 100757476--100757565 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
100757466 GTGACAGAGT
*
100757476 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
100757505 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
100757532 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
100757560 CACCAG
1 CACCAG
100757566 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:100757718 original size:28 final size:28
Alignment explanation
Indices: 100757671--100757735 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
100757661 AAATTAACCC
*
100757671 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
* *
100757699 TAGGGGTATGATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
100757727 TAGGGGTAT
1 TAGGGGTAT
100757736 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.29, C:0.08, G:0.29, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:100764128 original size:19 final size:19
Alignment explanation
Indices: 100764092--100764130 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
100764082 TTTTCATCAT
* *
100764092 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
100764111 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
100764130 A
1 A
100764131 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:100764634 original size:55 final size:56
Alignment explanation
Indices: 100764569--100764683 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
100764559 AGCATGGCTG
* * * *
100764569 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-AAAGATAATTTGTGGCA-TAGCCA
* * *
100764625 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAAAAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAAAAGATAATTTGTGGCATAGCCA
100764680 CCAG
1 CCAG
100764684 GACGCCTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 28 0.56
56 21 0.42
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAAAAGATAATTTGTGGCATAGCCA
Found at i:100764680 original size:28 final size:27
Alignment explanation
Indices: 100764594--100764683 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
100764584 GTGACAGAGT
*
100764594 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
100764623 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
100764650 CACCAGAAAAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
100764678 CACCAG
1 CACCAG
100764684 GACGCCTCCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:100765483 original size:17 final size:16
Alignment explanation
Indices: 100765452--100765485 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
100765442 AAGAATAAGC
100765452 TTTTAGGATTTCGGCT
1 TTTTAGGATTTCGGCT
*
100765468 TTTTATGATATTCGGCT
1 TTTTAGGAT-TTCGGCT
100765485 T
1 T
100765486 ATAAGGCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.15, C:0.12, G:0.21, T:0.53
Consensus pattern (16 bp):
TTTTAGGATTTCGGCT
Found at i:100767873 original size:49 final size:49
Alignment explanation
Indices: 100767800--100768087 Score: 326
Period size: 49 Copynumber: 5.8 Consensus size: 49
100767790 TAGCCGAAGC
* * *
100767800 TATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * * * *
100767849 AATCTGGTACACGTAGTAGCCTACACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * * * *
100767900 TTTCGGGTACGCATAGTAGCCTGCACTTAGCACTACACGTGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
100767949 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* *
100768000 T-TTCGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCG-GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
*
100768049 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
100768088 CTTGACCTCA
Statistics
Matches: 198, Mismatches: 35, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
49 113 0.57
50 10 0.05
51 75 0.38
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:100767978 original size:100 final size:100
Alignment explanation
Indices: 100767805--100768088 Score: 505
Period size: 100 Copynumber: 2.8 Consensus size: 100
100767795 GAAGCTATCT
* * *
100767805 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
*
100767870 TACACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
* *
100767905 GGTACGCATAGTAGCCTGCACTTAGCACTACACGTGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
100767970 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
*
100768005 AGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
100768070 TGCACTTAGTACTACACAC
66 TGCACTTAGTACTACACAC
100768089 TTGACCTCAC
Statistics
Matches: 175, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 175 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:100769639 original size:20 final size:20
Alignment explanation
Indices: 100769614--100769653 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
100769604 ATATTACATT
100769614 GCCTATATT-AACACAGTTGG
1 GCCTAT-TTCAACACAGTTGG
*
100769634 GCCTATTTCAATACAGTTGG
1 GCCTATTTCAACACAGTTGG
100769654 CCCATAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (20 bp):
GCCTATTTCAACACAGTTGG
Found at i:100785781 original size:12 final size:12
Alignment explanation
Indices: 100785764--100785788 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100785754 ACTAATAATA
100785764 ATAAAAATTTTC
1 ATAAAAATTTTC
100785776 ATAAAAATTTTC
1 ATAAAAATTTTC
100785788 A
1 A
100785789 AACATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:100787908 original size:60 final size:60
Alignment explanation
Indices: 100787820--100787956 Score: 172
Period size: 60 Copynumber: 2.3 Consensus size: 60
100787810 TAGTGTTAAC
*
100787820 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCT-TTAC-AGTATCG-GAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAG--TCGAGA-TATAT
* * *
100787881 TGGGCCTAGCCCATATCAGTATCAATCTGGGTCGTAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
*
100787941 TGGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
100787957 TAACATAGTT
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
60 54 0.79
61 12 0.18
62 2 0.03
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTCGAGATATAT
Found at i:100791821 original size:44 final size:44
Alignment explanation
Indices: 100791764--100792430 Score: 666
Period size: 44 Copynumber: 15.2 Consensus size: 44
100791754 AATCTAAGAT
*
100791764 GATTTGGCATCTCTGTATTGTCAGGGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATAGCA
*
100791808 GATTTAGCGTCTCTGTATTGTCAGAGG-GCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAG-GGAGCAGATCGAAGATAGCA
*
100791852 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATAGCA
100791896 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATAGCA
100791940 GATTTGGCGTCTCTGTATTGTCAGAGG-GCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAG-GGAGCAGATCGAAGATAGCA
100791984 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATAGCA
* * *
100792028 GATTTGGCGTCTCTGTATTCTCAGAGG-GCAGATTGAAGATAGTA
1 GATTTGGCGTCTCTGTATTGTCAG-GGAGCAGATCGAAGATAGCA
* * *
100792072 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGTA
1 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATAGCA
* * * * * *
100792116 AATTTGGCATCTCTGTATTGTCAGAGAGAAAATTGAAGATATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAG--ATAGCA
* * * * *
100792162 GATTTGGCTTTCACATGT-TTACG-C-TGAAGCAGATCTAAGAT----
1 GATTTGGC-GTCTC-TGTATT--GTCAGGGAGCAGATCGAAGATAGCA
* *
100792203 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGTA
1 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATAGCA
* * * ** * * * *
100792247 GATTCGACATCTCAATATTGTTAGAGAGCAAATTGAAGATATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAG--ATAGCA
* * * * *
100792293 GATTTGGCTTTCACGTGT-TTACG-C-TGAAGCAGATCTAAGAT----
1 GATTTGGC-GTCTC-TGTATT--GTCAGGGAGCAGATCGAAGATAGCA
* ** * *
100792334 GATTTGGCGTCTTTGTATTGTCAAAGAGCAGATTGGAGATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATAGCA
* * *
100792378 GATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGACATAGCA
1 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAG--ATAGCA
100792424 GATTTGG
1 GATTTGG
100792431 TTTTCACGTG
Statistics
Matches: 519, Mismatches: 70, Indels: 66
0.79 0.11 0.10
Matches are distributed among these distances:
38 2 0.00
39 8 0.02
40 33 0.06
41 16 0.03
43 4 0.01
44 376 0.72
45 10 0.02
46 36 0.07
47 27 0.05
48 5 0.01
49 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATAGCA
Found at i:100791871 original size:88 final size:88
Alignment explanation
Indices: 100791764--100792430 Score: 741
Period size: 88 Copynumber: 7.6 Consensus size: 88
100791754 AATCTAAGAT
* * *
100791764 GATTTGGCATCTCTGTATTGTCAGGGAGCAGATCGAAGATAGCAGATTTAGCGTCTCTGTATTGT
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGT
*
100791829 CAGAGGGCAGATCGAAGATAGCA
66 CAGAGAGCAGATCGAAGATAGCA
100791852 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGT
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGT
*
100791917 CAGGGAGCAGATCGAAGATAGCA
66 CAGAGAGCAGATCGAAGATAGCA
*
100791940 GATTTGGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGT
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGT
*
100792005 CAGGGAGCAGATCGAAGATAGCA
66 CAGAGAGCAGATCGAAGATAGCA
* * * * *
100792028 GATTTGGCGTCTCTGTATTCTCAGAGGGCAGATTGAAGATAGTAGATTTGGCATCTCTGTATTGT
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGT
*
100792093 CAGAGAGCAGATCGAAGATAGTA
66 CAGAGAGCAGATCGAAGATAGCA
* * * * * * *
100792116 AATTTGGCATCTCTGTATTGTCAGAGAGAAAATTGAAGATATAGCAGATTTGGCTTTCACATGT-
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAG--ATAGCAGATTTGGC-GTCTC-TGTA
* *
100792180 TTACG-CTGA-AGCAGATCTAAGAT----
62 TT--GTCAGAGAGCAGATCGAAGATAGCA
* * * * **
100792203 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGTAGATTCGACATCTCAATATTGT
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGT
* * *
100792268 TAGAGAGCAAATTGAAGATATAGCA
66 CAGAGAGCAGATCGAAG--ATAGCA
* * * * *
100792293 GATTTGGCTTTCACGTGT-TTACG-CTGA-AGCAGATCTAAGAT----GATTTGGCGTCTTTGTA
1 GATTTGGC-GTCTC-TGTATT--GTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTA
* * *
100792351 TTGTCAAAGAGCAGATTGGAGATAGCA
62 TTGTCAGAGAGCAGATCGAAGATAGCA
* *
100792378 GATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGACATAGCAGATTTGG
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAG--ATAGCAGATTTGG
100792431 TTTTCACGTG
Statistics
Matches: 492, Mismatches: 59, Indels: 54
0.81 0.10 0.09
Matches are distributed among these distances:
82 2 0.00
83 9 0.02
84 29 0.06
85 25 0.05
86 4 0.01
87 61 0.12
88 284 0.58
90 28 0.06
91 36 0.07
92 12 0.02
93 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (88 bp):
GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGT
CAGAGAGCAGATCGAAGATAGCA
Found at i:100792001 original size:132 final size:132
Alignment explanation
Indices: 100791764--100792430 Score: 761
Period size: 132 Copynumber: 5.1 Consensus size: 132
100791754 AATCTAAGAT
* *
100791764 GATTTGGCATCTCTGTATTGTCAGGGAGCAGATCGAAGATAGCAGATTTAGCGTCTCTGTATTGT
1 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATAG-AGATTTGGCGTCTCTGTATTGT
* * *
100791829 CAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAG-ATA
65 CAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGAATA
100791893 GCA
130 GCA
100791896 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGT
1 GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATAG-AGATTTGGCGTCTCTGTATTGT
* * * *
100791961 CAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAG-ATA
65 CAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGAATA
100792025 GCA
130 GCA
* * *
100792028 GATTTGGCGTCTCTGTATTCTCAGAGG-GCAGATTGAAGATAGTAGATTTGGCATCTCTGTATTG
1 GATTTGGCGTCTCTGTATTGTCAG-GGAGCAGATCGAAGATAG-AGATTTGGCGTCTCTGTATTG
* * * *
100792092 TCAGAGAGCAGATCGAAGATAGTAAATTTGGCATCTCTGTATTGTCAGAGAGAAAATTGAAGATA
64 TCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGA-A
100792157 TAGCA
128 TAGCA
* * * * *
100792162 GATTTGGCTTTCACATGT-TTACG-C-TGAAGCAGATCTAAGAT---GATTTGGCGTCTCTGTAT
1 GATTTGGC-GTCTC-TGTATT--GTCAGGGAGCAGATCGAAGATAGAGATTTGGCGTCTCTGTAT
* * * ** * *
100792221 TGTCAGAGAGCAGATCGAAGATAGTAGATTCGACATCTCAATATTGTTAGAGAGCAAATTGAAGA
62 TGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGA
100792286 TATAGCA
127 -ATAGCA
* * * * * *
100792293 GATTTGGCTTTCACGTGT-TTACG-C-TGAAGCAGATCTAAGAT---GATTTGGCGTCTTTGTAT
1 GATTTGGC-GTCTC-TGTATT--GTCAGGGAGCAGATCGAAGATAGAGATTTGGCGTCTCTGTAT
* * *
100792352 TGTCAAAGAGCAGATTGGAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGA
62 TGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGA
100792417 CATAGCA
127 -ATAGCA
100792424 GATTTGG
1 GATTTGG
100792431 TTTTCACGTG
Statistics
Matches: 484, Mismatches: 43, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
131 207 0.43
132 240 0.50
133 2 0.00
134 15 0.03
135 16 0.03
136 4 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (132 bp):
GATTTGGCGTCTCTGTATTGTCAGGGAGCAGATCGAAGATAGAGATTTGGCGTCTCTGTATTGTC
AGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCGAAGAATAG
CA
Found at i:100792245 original size:131 final size:129
Alignment explanation
Indices: 100791808--100792557 Score: 798
Period size: 131 Copynumber: 5.7 Consensus size: 129
100791798 GAAGATAGCA
* * *
100791808 GATTTAGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGT
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGT
* * * * * *
100791873 CAGAGAGCAGATCGAAG-ATAGCAGATTTGGC-GTCTCTGTATT--GTCAGGGAGCAGATCGAAG
66 CAGAGAGCAAATCGAAGAATAGCAGATTTGGCTTTCACTGT-TTACG-C-TGAAGCAGATCTAAG
100791934 AT
128 AT
* *
100791936 AGCAGATTTGGCGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTA
1 ----GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTA
* * * * * * *
100792001 TTGTCAGGGAGCAGATCGAAG-ATAGCAGATTTGGC-GTCTCTGTATT-CTCAGAGGGCAGAT-T
62 TTGTCAGAGAGCAAATCGAAGAATAGCAGATTTGGCTTTCACTGT-TTACGCTGA-AGCAGATCT
100792062 GAAGATAGT
125 -AAG--A-T
* * *
100792071 AGATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGTAAATTTGGCATCTCTGTATTG
1 -GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTG
* *
100792136 TCAGAGAGAAAATTGAAGATATAGCAGATTTGGCTTTCACATGTTTACGCTGAAGCAGATCTAAG
65 TCAGAGAGCAAATCGAAGA-ATAGCAGATTTGGCTTTCAC-TGTTTACGCTGAAGCAGATCTAAG
100792201 AT
128 AT
* * * **
100792203 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGTAGATTCGACATCTCAATATTGT
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGT
* *
100792268 TAGAGAGCAAATTGAAGATATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGA
66 CAGAGAGCAAATCGAAGA-ATAGCAGATTTGGCTTTCAC-TGTTTACGCTGAAGCAGATCTAAGA
100792333 T
129 T
* * * *
100792334 GATTTGGCGTCTTTGTATTGTCAAAGAGCAGATTGGAGATAGCAGATTTGGCATCTCTGTATTGT
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGT
* **
100792399 CAGAGAGCAAATCGAAGACATAGCAGATTTGGTTTTCACGTGTTTACATTGAAGCAGATCTAAGA
66 CAGAGAGCAAATCGAAGA-ATAGCAGATTTGGCTTTCAC-TGTTTACGCTGAAGCAGATCTAAGA
100792464 T
129 T
* * * * * * **
100792465 GATTTGGCATCTCTGTACTGTCAGAGAACAAATCGAA-AAAACAGATTTGGCATCTCCATATTCG
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATT-G
* * * *
100792529 ACGGAGAGTAGATCGAAGACATAGCAGAT
65 TCAGAGAGCAAATCGAAGA-ATAGCAGAT
100792558 CTGACCTTCA
Statistics
Matches: 544, Mismatches: 61, Indels: 27
0.86 0.10 0.04
Matches are distributed among these distances:
130 21 0.04
131 294 0.54
132 190 0.35
133 1 0.00
134 15 0.03
135 15 0.03
136 8 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (129 bp):
GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGT
CAGAGAGCAAATCGAAGAATAGCAGATTTGGCTTTCACTGTTTACGCTGAAGCAGATCTAAGAT
Found at i:100792813 original size:78 final size:78
Alignment explanation
Indices: 100792508--100792802 Score: 450
Period size: 78 Copynumber: 3.8 Consensus size: 78
100792498 CGAAAAAACA
** * * *
100792508 GATTTGGCATCTCCATATTCGACGGAGAGTAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
100792573 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* *
100792586 GATTTGGCATCTCTGTATTAGA-GGAGGAGTAGATCGAAGACACAGCAGATCTGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGG-GGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGA
100792650 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
*
100792664 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
100792728 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* * * *
100792742 GATTTGGCATCTCTGTATTAGACAGGGAGCAGATCAAAGACATATCAGATCTCACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
100792803 GTGTTTAGAT
Statistics
Matches: 201, Mismatches: 12, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
77 3 0.01
78 195 0.97
79 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:100792940 original size:89 final size:89
Alignment explanation
Indices: 100792835--100793000 Score: 262
Period size: 89 Copynumber: 1.9 Consensus size: 89
100792825 AAGATGACAG
* * *
100792835 ATTTGGCATCTTTGTATTAGACGGAGAGTAAATC-AGAGATAACAGATTTGACATCTCTGTATTA
1 ATTTGGCATCTCTGTATTAGACAGAGAGCAAATCGA-AGATAACAGATTTGACATCTCTGTATTA
100792899 GACGGGGAGCAGACTAAAGAAGCAA
65 GACGGGGAGCAGACTAAAGAAGCAA
* * *
100792924 ATTTGGCATCTCTGTATTAGACAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAG
1 ATTTGGCATCTCTGTATTAGACAGAGAGCAAATCGAAGATAACAGATTTGACATCTCTGTATTAG
100792989 ACGGGGAGCAGA
66 ACGGGGAGCAGA
100793001 TCAAATATAG
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
89 69 0.99
90 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (89 bp):
ATTTGGCATCTCTGTATTAGACAGAGAGCAAATCGAAGATAACAGATTTGACATCTCTGTATTAG
ACGGGGAGCAGACTAAAGAAGCAA
Found at i:100793015 original size:45 final size:45
Alignment explanation
Indices: 100792742--100793015 Score: 238
Period size: 45 Copynumber: 6.1 Consensus size: 45
100792732 GATCCAAGAT
*
100792742 GATTTGGCATCTCTGTATTAGACAGG-GAGCAGATCAAAGACATATCA
1 GATTTGGCATCTCTGTATTAGAC-GGAGAGCAGATCAAAG--ATAACA
* * * * * *
100792789 GATCT--CACCTTCATGTGTTTAGATC-GA-AGCAAATCCAAGATGACA
1 GATTTGGCATC-TC-TGT-ATTAGA-CGGAGAGCAGATCAAAGATAACA
* * * *
100792834 GATTTGGCATCTTTGTATTAGACGGAGAGTAAATCAGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCAAAGATAACA
* * *
100792879 GATTTGACATCTCTGTATTAGACGGGGAGCAGA-CTAAAGA-AGCA
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATC-AAAGATAACA
* * *
100792923 AATTTGGCATCTCTGTATTAGACAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCAAAGATAACA
* * * *
100792968 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAATATAGCA
1 GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCAAAGATAACA
100793013 GAT
1 GAT
100793016 ATTGCCTTCC
Statistics
Matches: 180, Mismatches: 35, Indels: 26
0.75 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 44 0.24
45 105 0.58
46 3 0.02
47 21 0.12
48 5 0.03
49 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGAGAGCAGATCAAAGATAACA
Found at i:100793300 original size:19 final size:19
Alignment explanation
Indices: 100793275--100793347 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
100793265 ATAATCTTCA
*
100793275 ATGATATGCAATCTTAGAT
1 ATGATATACAATCTTAGAT
*
100793294 GTGATATACAATCTTAGAT
1 ATGATATACAATCTTAGAT
100793313 ATG--ATACAATCTTAGAT
1 ATGATATACAATCTTAGAT
100793330 ATGATATACAATCTTAGA
1 ATGATATACAATCTTAGA
100793348 AGATATGATT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
17 17 0.35
19 32 0.65
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.36
Consensus pattern (19 bp):
ATGATATACAATCTTAGAT
Found at i:100793336 original size:22 final size:20
Alignment explanation
Indices: 100793309--100793356 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
100793299 ATACAATCTT
100793309 AGATATGATACAATCTTAG-
1 AGATATGATACAATCTTAGA
*
100793328 ATATGAT-ATACAATCTTAGA
1 AGAT-ATGATACAATCTTAGA
100793348 AGATATGAT
1 AGATATGAT
100793357 TTTGTAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (20 bp):
AGATATGATACAATCTTAGA
Found at i:100793383 original size:21 final size:23
Alignment explanation
Indices: 100793339--100793383 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
100793329 TATGATATAC
*
100793339 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATATGAATTTGT
*
100793362 AATCTTA-AAGAT-TTAATTTGT
1 AATCTTAGAAGATATGAATTTGT
100793383 A
1 A
100793384 GATACCTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 5 0.25
23 7 0.35
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.44
Consensus pattern (23 bp):
AATCTTAGAAGATATGAATTTGT
Found at i:100795415 original size:13 final size:14
Alignment explanation
Indices: 100795397--100795434 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
100795387 TGGCTTATTA
100795397 TTTATTTTTTGG-T
1 TTTATTTTTTGGTT
*
100795410 TTTATTTTGTGGTT
1 TTTATTTTTTGGTT
100795424 TTTATTTTTTG
1 TTTATTTTTTG
100795435 TATGAGTCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.08, C:0.00, G:0.16, T:0.76
Consensus pattern (14 bp):
TTTATTTTTTGGTT
Found at i:100797354 original size:2 final size:2
Alignment explanation
Indices: 100797347--100797380 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
100797337 TGCAAATGTA
* *
100797347 AT AT AT AT AT AT AC AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100797381 TAACAGCGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:100797366 original size:14 final size:14
Alignment explanation
Indices: 100797347--100797380 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
100797337 TGCAAATGTA
100797347 ATATATATATATAC
1 ATATATATATATAC
100797361 ATATATATATATAC
1 ATATATATATATAC
100797375 ATATAT
1 ATATAT
100797381 TAACAGCGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (14 bp):
ATATATATATATAC
Found at i:100799090 original size:67 final size:66
Alignment explanation
Indices: 100799007--100799140 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 66
100798997 TGCACTTTGA
100799007 ATCAAATTTCATGTACAGTTTTGAGTTTTAATCCTTTTTTTAAAGATCAGCCACATTAAATATGT
1 ATCAAATTTCATGTACAGTTTTGAGTTTTAATCC-TTTTTTAAAGATCAGCCACATTAAATATGT
100799072 AT
65 AT
100799074 ATCAAATTTCATGTACAGTTTTGAGTTTTAATCCTTTTTTAAAGATCAGCCACATTAAATATGTA
1 ATCAAATTTCATGTACAGTTTTGAGTTTTAATCCTTTTTTAAAGATCAGCCACATTAAATATGTA
100799139 T
66 T
100799140 A
1 A
100799141 CTTATTTCAA
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
66 33 0.49
67 34 0.51
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (66 bp):
ATCAAATTTCATGTACAGTTTTGAGTTTTAATCCTTTTTTAAAGATCAGCCACATTAAATATGTA
T
Found at i:100799919 original size:30 final size:32
Alignment explanation
Indices: 100799866--100799936 Score: 103
Period size: 31 Copynumber: 2.3 Consensus size: 32
100799856 GTAATTTAAC
*
100799866 AATT-GGTGACCAAAAAAGAAAAAT-TCGAAT
1 AATTGGGTGACCAAAAAAGAAAAATGTCAAAT
100799896 AATTGGGTGACCAAAAAAG-AAAATGTCAAAT
1 AATTGGGTGACCAAAAAAGAAAAATGTCAAAT
*
100799927 AGTTGGGTGA
1 AATTGGGTGA
100799937 TCATTTTGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 9 0.24
31 28 0.76
ACGTcount: A:0.48, C:0.08, G:0.23, T:0.21
Consensus pattern (32 bp):
AATTGGGTGACCAAAAAAGAAAAATGTCAAAT
Found at i:100800139 original size:25 final size:25
Alignment explanation
Indices: 100800111--100800160 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
100800101 ATTTTCAGAG
100800111 TTAGATTGGATTCATGTGCTATCTT
1 TTAGATTGGATTCATGTGCTATCTT
*
100800136 TTAGTTTGGATTCATGTGCTATCTT
1 TTAGATTGGATTCATGTGCTATCTT
100800161 CCTCTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.18, C:0.12, G:0.20, T:0.50
Consensus pattern (25 bp):
TTAGATTGGATTCATGTGCTATCTT
Found at i:100803074 original size:12 final size:12
Alignment explanation
Indices: 100803051--100803088 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
100803041 TAAGTCTAAG
*
100803051 AAAATAACAATA
1 AAAATAAAAATA
*
100803063 AATATAAAAATA
1 AAAATAAAAATA
100803075 AAAAT-AAAATA
1 AAAATAAAAATA
100803086 AAA
1 AAA
100803089 CAAATGGACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:100803074 original size:18 final size:17
Alignment explanation
Indices: 100803051--100803088 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
100803041 TAAGTCTAAG
*
100803051 AAAATAACAATAAATATA
1 AAAATAAAAATAAA-ATA
100803069 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAATA
100803086 AAA
1 AAA
100803089 CAAATGGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:100804703 original size:15 final size:15
Alignment explanation
Indices: 100804685--100804772 Score: 58
Period size: 15 Copynumber: 6.0 Consensus size: 15
100804675 AAAACATACC
100804685 AATAAAAAGAATAAA
1 AATAAAAAGAATAAA
* *
100804700 AATAATAACAAT---
1 AATAAAAAGAATAAA
*
100804712 AATAATAA-AATAGAA
1 AATAAAAAGAATA-AA
* **
100804727 AATAACAAGAATACT
1 AATAAAAAGAATAAA
*
100804742 AATAAAAAGAATAAT
1 AATAAAAAGAATAAA
*
100804757 AATAATAATGAATAAA
1 AATAA-AAAGAATAAA
100804773 TAAAATAAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
11 3 0.05
12 8 0.14
15 35 0.60
16 12 0.21
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.20
Consensus pattern (15 bp):
AATAAAAAGAATAAA
Found at i:100804715 original size:3 final size:3
Alignment explanation
Indices: 100804694--100804790 Score: 67
Period size: 3 Copynumber: 32.7 Consensus size: 3
100804684 CAATAAAAAG
* * * * *
100804694 AAT AAA AAT AAT AAC AAT AAT AAT AA- AAT AGAA AAT AAC AAG AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* * *
100804739 ACT AAT AAA AAG AAT AAT AAT AAT AAT GAAT AAAT AA- AAT AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT AAT
100804784 AA- AAT AA
1 AAT AAT AA
100804791 ATAAAGAAAA
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
2 8 0.11
3 57 0.78
4 8 0.11
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (3 bp):
AAT
Found at i:100812816 original size:22 final size:23
Alignment explanation
Indices: 100812779--100812825 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 23
100812769 AGAGGGGAGA
100812779 AGAATAGAACAGAAA-GGAAAAG
1 AGAATAGAACAGAAAGGGAAAAG
100812801 AGAATAGAA-AGAAAAGTGGAAAAG
1 AGAATAGAACAG-AAAG-GGAAAAG
100812825 A
1 A
100812826 AGGTTGGGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 2 0.09
22 12 0.55
24 8 0.36
ACGTcount: A:0.64, C:0.02, G:0.28, T:0.06
Consensus pattern (23 bp):
AGAATAGAACAGAAAGGGAAAAG
Found at i:100820390 original size:39 final size:39
Alignment explanation
Indices: 100820330--100820404 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
100820320 CTAGTTAGAG
**
100820330 TGGGCTTGGCATAATTGTACATAGTACGATGAGCAGAAT
1 TGGGCTTGGCATAATCCTACATAGTACGATGAGCAGAAT
100820369 TGGGCTTGGCATAATCCTACATAGTACGATGAGCAG
1 TGGGCTTGGCATAATCCTACATAGTACGATGAGCAG
100820405 GATTCAGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (39 bp):
TGGGCTTGGCATAATCCTACATAGTACGATGAGCAGAAT
Found at i:100828276 original size:21 final size:21
Alignment explanation
Indices: 100828228--100828266 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
100828218 GAAGAAACTC
100828228 AAGAAA-AA-AGGAAGAAAAG
1 AAGAAAGAAGAGGAAGAAAAG
100828247 AAGAAAGAAGAGGAAGAAAA
1 AAGAAAGAAGAGGAAGAAAA
100828267 CGTGAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 2 0.11
21 10 0.56
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (21 bp):
AAGAAAGAAGAGGAAGAAAAG
Found at i:100829182 original size:27 final size:27
Alignment explanation
Indices: 100829152--100829203 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
100829142 CTTATTTAAA
**
100829152 TTTTTTAGTGATTTTATTAAAAATAAT
1 TTTTTTAAAGATTTTATTAAAAATAAT
100829179 TTTTTTAAAGATTTTATTAAAAATA
1 TTTTTTAAAGATTTTATTAAAAATA
100829204 TAAAAAGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (27 bp):
TTTTTTAAAGATTTTATTAAAAATAAT
Found at i:100837163 original size:12 final size:12
Alignment explanation
Indices: 100837146--100837171 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
100837136 GATCTCTTGA
100837146 TAACACACAAGC
1 TAACACACAAGC
100837158 TAACACACAAGC
1 TAACACACAAGC
100837170 TA
1 TA
100837172 TGCCAATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.31, G:0.08, T:0.12
Consensus pattern (12 bp):
TAACACACAAGC
Found at i:100844223 original size:69 final size:69
Alignment explanation
Indices: 100844112--100844250 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
100844102 CAAGACTCTA
*
100844112 TCAGCCCTACCACCACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
1 TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
100844177 CCTG
66 CCTG
100844181 TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
1 TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
100844246 CCTG
66 CCTG
100844250 T
1 T
100844251 TTTTCCTATC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (69 bp):
TCAGCCCTACCACAACTACAAAACCTGCTGAAAATCCTACAGCCACTGTTATTCCTGTTTTGGAA
CCTG
Found at i:100845234 original size:52 final size:52
Alignment explanation
Indices: 100845156--100845291 Score: 227
Period size: 52 Copynumber: 2.6 Consensus size: 52
100845146 ATCAGACCTT
* * * *
100845156 GAAAAGATCAATAAAACTAAGGCCTCTTTTTGAGTCCATCCATGTTTTCTTA
1 GAAAAGACCAATAAAACCAAGGCCTCTTTTTGAGTCCACCCAAGTTTTCTTA
*
100845208 GAAAAGACCAATAAAACCAAGGCCTCTTTCTGAGTCCACCCAAGTTTTCTTA
1 GAAAAGACCAATAAAACCAAGGCCTCTTTTTGAGTCCACCCAAGTTTTCTTA
100845260 GAAAAGACCAATAAAACCAAGGCCTCTTTTTG
1 GAAAAGACCAATAAAACCAAGGCCTCTTTTTG
100845292 GTTCCATGTT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 78 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (52 bp):
GAAAAGACCAATAAAACCAAGGCCTCTTTTTGAGTCCACCCAAGTTTTCTTA
Found at i:100857065 original size:16 final size:16
Alignment explanation
Indices: 100857044--100857074 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
100857034 CTAAACCTGT
100857044 CCCAAACCCATTTTTA
1 CCCAAACCCATTTTTA
100857060 CCCAAACCCATTTTT
1 CCCAAACCCATTTTT
100857075 CAAGCCTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.39, G:0.00, T:0.32
Consensus pattern (16 bp):
CCCAAACCCATTTTTA
Found at i:100858836 original size:12 final size:11
Alignment explanation
Indices: 100858814--100858882 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 11
100858804 GTACACATTA
100858814 TTTATATTATT
1 TTTATATTATT
100858825 TTTATGATTATT
1 TTTAT-ATTATT
100858837 ATTGTAT-TTATT
1 -TT-TATATTATT
*
100858849 TTTACTACTATT
1 TTTA-TATTATT
*
100858861 ATTATATTTATT
1 TTTATA-TTATT
*
100858873 ATTAGTATTA
1 TTTA-TATTA
100858883 GTATTATAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
10 2 0.04
11 10 0.21
12 29 0.60
13 4 0.08
14 3 0.06
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (11 bp):
TTTATATTATT
Found at i:100858869 original size:24 final size:23
Alignment explanation
Indices: 100858810--100858890 Score: 83
Period size: 24 Copynumber: 3.4 Consensus size: 23
100858800 TCATGTACAC
100858810 ATTATT-TATATTATTTTTATGATT
1 ATTATTATAT-TTATTTTTAT-ATT
* *
100858834 ATTATTGTATTTATTTTTACTACT
1 ATTATTATATTTATTTTTA-TATT
*
100858858 ATTATTATATTTATTATTAGTATT
1 ATTATTATATTTATTTTTA-TATT
*
100858882 AGTATTATA
1 ATTATTATA
100858891 ATTACTATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
24 45 0.92
25 4 0.08
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (23 bp):
ATTATTATATTTATTTTTATATT
Found at i:100859142 original size:37 final size:37
Alignment explanation
Indices: 100859099--100859174 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 37
100859089 CCATATTATG
*
100859099 TATATATTTTATAT-TATATATATATGTATTTTTTAATAT
1 TATAT-TTTTATATGTAT-TATATATATA-TTTTTAATAT
*
100859138 TATATTTTTATATGTATTATGTATATATTTTTAATAT
1 TATATTTTTATATGTATTATATATATATTTTTAATAT
100859175 CACATTATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 10 0.29
38 16 0.47
39 8 0.24
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (37 bp):
TATATTTTTATATGTATTATATATATATTTTTAATAT
Found at i:100859154 original size:27 final size:25
Alignment explanation
Indices: 100859091--100859166 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 25
100859081 TTTTAACACC
100859091 ATAT-TATGTATATATTTTATATTAT
1 ATATATATGTAT-TATTTTATATTAT
100859116 ATATATATGTATT-TTTTAATATTAT
1 ATATATATGTATTATTTT-ATATTAT
* *
100859141 ATTTTTATATGTATTATGTATATATT
1 A--TATATATGTATTAT-TTTATATT
100859167 TTTAATATCA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
24 4 0.09
25 13 0.30
26 7 0.16
27 11 0.26
28 6 0.14
29 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (25 bp):
ATATATATGTATTATTTTATATTAT
Found at i:100859164 original size:15 final size:15
Alignment explanation
Indices: 100859110--100859165 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
100859100 ATATATTTTA
*
100859110 TATTATATATATATG
1 TATTATTTATATATG
*
100859125 TATTTTTTA-ATAT-
1 TATTATTTATATATG
*
100859138 TA-TATTTTTATATG
1 TATTATTTATATATG
*
100859152 TATTATGTATATAT
1 TATTATTTATATAT
100859166 TTTTAATATC
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
12 4 0.12
13 6 0.19
14 6 0.19
15 16 0.50
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (15 bp):
TATTATTTATATATG
Found at i:100859341 original size:20 final size:20
Alignment explanation
Indices: 100859304--100859342 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
100859294 TTCTTGGTAT
*
100859304 ATATATATATTTCTTTATTC
1 ATATATATATTTCATTATTC
100859324 ATATAT-TATTATCATTATT
1 ATATATATATT-TCATTATT
100859343 TTCCACTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (20 bp):
ATATATATATTTCATTATTC
Found at i:100859521 original size:27 final size:27
Alignment explanation
Indices: 100859490--100859542 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
100859480 ATTATGTATA
*
100859490 TATTTTTAATACTACGTATATATTTTT
1 TATTTCTAATACTACGTATATATTTTT
* *
100859517 TATTTCTATTATTACGTATATATTTT
1 TATTTCTAATACTACGTATATATTTT
100859543 AATACATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.28, C:0.08, G:0.04, T:0.60
Consensus pattern (27 bp):
TATTTCTAATACTACGTATATATTTTT
Found at i:100859751 original size:15 final size:15
Alignment explanation
Indices: 100859731--100859762 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
100859721 TTATTATCGT
100859731 TTTATACTATTATTA
1 TTTATACTATTATTA
*
100859746 TTTATATTATTATTA
1 TTTATACTATTATTA
100859761 TT
1 TT
100859763 ATTATCGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTATACTATTATTA
Found at i:100866860 original size:64 final size:64
Alignment explanation
Indices: 100866759--100866886 Score: 202
Period size: 64 Copynumber: 2.0 Consensus size: 64
100866749 CATATAATAA
* * *
100866759 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGTATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATCTCAATCATAGCATCCTAATTATTTGACATAAGCAT
* **
100866823 CACATTTAGTTAGGAGCATTTGATTCATCTCAATCATAGCATCCTAATTATTTGGGATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATCTCAATCATAGCATCCTAATTATTTGACATAAGCAT
100866887 AGATACATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATCTCAATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:100867014 original size:43 final size:42
Alignment explanation
Indices: 100866966--100867284 Score: 194
Period size: 43 Copynumber: 7.4 Consensus size: 42
100866956 AGCCTTATCT
100866966 CCCTAAGCAGTAGGGTAACAGAGTAAATTTACAGATCTTAACC
1 CCCTAAGCAGTAGGGTAACAGA-TAAATTTACAGATCTTAACC
* ** * ** **
100867009 CCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCCTTCAA-C
1 CCCTAAGCAGTAGGGTAACAGAT--AAATTTACAGATCTT-AACC
* * *
100867053 CTCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACC
1 CCCTAAGCAGTAGGGTAACA-GATAAATTTACAGATCTTAACC
** * * ** ** *
100867096 CCCTAAGCAGTAGGAAAACAGATCAAAGGTGATGGGCCTTAAAC
1 CCCTAAGCAGTAGGGTAACAGAT-AAA-TTTACAGATCTTAACC
* * * *
100867140 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCA
1 CCCTAAGCAGTAGGGTAACA-GATAAATTTACAGATCTTAACC
* *** *
100867183 CCCTAAGCAGTAGGGGAACAGATAAA-AGGCA-ATGGGCCTTAAAC
1 CCCTAAGCAGTAGGGTAACAGATAAATTTACAGAT----CTTAACC
* * * * *
100867227 CCCTAAGCAATAGGGTTACAGACTGAATTTACAGATCTTATCA
1 CCCTAAGCAGTAGGGTAACAGA-TAAATTTACAGATCTTAACC
100867270 CCCTAAGCAGTAGGG
1 CCCTAAGCAGTAGGG
100867285 AAATAGATCG
Statistics
Matches: 197, Mismatches: 64, Indels: 30
0.68 0.22 0.10
Matches are distributed among these distances:
40 2 0.01
41 2 0.01
42 9 0.05
43 92 0.47
44 79 0.40
45 9 0.05
46 2 0.01
47 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAGATAAATTTACAGATCTTAACC
Found at i:100867066 original size:44 final size:43
Alignment explanation
Indices: 100867002--100867334 Score: 174
Period size: 44 Copynumber: 7.6 Consensus size: 43
100866992 ATTTACAGAT
100867002 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGC
1 CTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGC
* * * * * ** **
100867046 CTTCAACCTCTAAGCAGTAGGGTAACAG-GCTGAA-TTTACAGAT
1 CTT-AACCCCTAAGCAGTAGGGAAACAGATC-GAAGGTGATGGGC
* *
100867089 CTTAACCCCCTAAGCAGTAGGAAAACAGATCAAAGGTGATGGGC
1 CTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGC
* * * * ** **
100867133 CTTAAACCCCTAAGCAGTAGGGTAACAG-GCTGAA-TTTACAGAT
1 CTT-AACCCCTAAGCAGTAGGGAAACAGATC-GAAGGTGATGGGC
* * ** **
100867176 CTTATCACCCTAAGCAGTAGGGGAACAGATAAAAGGCAATGGGC
1 CTTAAC-CCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGC
* ** * * ** **
100867220 CTTAAACCCCTAAGCAATAGGGTTACAGA-CTGAA-TTTACAGAT
1 CTT-AACCCCTAAGCAGTAGGGAAACAGATC-GAAGGTGATGGGC
* * *
100867263 CTTATCACCCTAAGCAGTAGGGAAATAGATCGAAGGCGATGGGC
1 CTTAAC-CCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGC
* *
100867307 CTTAAACCCCTAAACAGTAGGGTAACAG
1 CTT-AACCCCTAAGCAGTAGGGAAACAG
100867335 GCTGAATTTA
Statistics
Matches: 202, Mismatches: 71, Indels: 32
0.66 0.23 0.10
Matches are distributed among these distances:
42 6 0.03
43 83 0.41
44 105 0.52
45 8 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (43 bp):
CTTAACCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGC
Found at i:100867066 original size:87 final size:87
Alignment explanation
Indices: 100866966--100867384 Score: 624
Period size: 87 Copynumber: 4.8 Consensus size: 87
100866956 AGCCTTATCT
* * *
100866966 CCCTAAGCAGTAGGGTAACAGAG-TAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAG
1 CCCTAAGCAGTAGGGTAACAG-GCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAG
* *
100867030 ATCGAAGGTGATGGGCCTTCAAC
65 ATCGAAGGCGATGGGCCTTAAAC
* * * *
100867053 CTCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGAAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGA
* *
100867118 TCAAAGGTGATGGGCCTTAAAC
66 TCGAAGGCGATGGGCCTTAAAC
*
100867140 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGGAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGA
** *
100867205 TAAAAGGCAATGGGCCTTAAAC
66 TCGAAGGCGATGGGCCTTAAAC
* * * *
100867227 CCCTAAGCAATAGGGTTACAGACTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAATAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGA
100867292 TCGAAGGCGATGGGCCTTAAAC
66 TCGAAGGCGATGGGCCTTAAAC
* * *
100867314 CCCTAAACAGTAGGGTAACAGGCTGAATTTATAGATCTTATCACCCTAAGCAGTAGGGAAATAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGA
100867379 TCGAAG
66 TCGAAG
100867385 CTATAAATCC
Statistics
Matches: 305, Mismatches: 26, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
86 1 0.00
87 304 1.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (87 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAACAGA
TCGAAGGCGATGGGCCTTAAAC
Found at i:100867584 original size:44 final size:45
Alignment explanation
Indices: 100867508--100867629 Score: 140
Period size: 45 Copynumber: 2.7 Consensus size: 45
100867498 GCAACAGTAA
* ** * * *
100867508 ATCTCCTTGAAGTTTTAGCGGAGTAGATTGAAG-TCA-CAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-AGCAAATCTT
*
100867552 ATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTT
* *
100867597 ATTTCCCTGAAGTTGCAGTGGAACAGATTGAAG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
100867630 CTATGAATAA
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
44 28 0.42
45 38 0.58
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (45 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTT
Found at i:100869168 original size:3 final size:3
Alignment explanation
Indices: 100869149--100869233 Score: 50
Period size: 3 Copynumber: 28.7 Consensus size: 3
100869139 ACATTATTTA
* * * * *
100869149 TAT TAT TTT TAT GAT TAT TAT T-G TATT TAT T-T TAC TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * *
100869193 TA- TATT TAT TAT TAG TAT TAG TAT TAT AAT TAC TAT TAT TA
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
100869234 CACTTATATG
Statistics
Matches: 61, Mismatches: 16, Indels: 10
0.70 0.18 0.11
Matches are distributed among these distances:
2 5 0.08
3 52 0.85
4 4 0.07
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:100869181 original size:23 final size:22
Alignment explanation
Indices: 100869141--100869202 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 22
100869131 TCATGTACAC
*
100869141 ATTATTTATATTATTTTTA-TGATT
1 ATTATTTAT-TTA-TTTTACT-ACT
100869165 ATTATTGTATTTATTTTACTACT
1 ATTATT-TATTTATTTTACTACT
100869188 ATTATTATATTTATT
1 ATTATT-TATTTATT
100869203 ATTAGTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 21 0.62
24 10 0.29
25 3 0.09
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (22 bp):
ATTATTTATTTATTTTACTACT
Found at i:100869443 original size:11 final size:11
Alignment explanation
Indices: 100869421--100869500 Score: 58
Period size: 11 Copynumber: 7.5 Consensus size: 11
100869411 TTTTAACACC
*
100869421 ATATTATGTAT
1 ATATTATATAT
*
100869432 ATATTTTATAT
1 ATATTATATAT
100869443 ATATTATATAT
1 ATATTATATAT
*
100869454 ATATGTAT-TTT
1 ATAT-TATATAT
* *
100869465 TTAATAT-TAT
1 ATATTATATAT
*
100869475 AT-TTTTATAT
1 ATATTATATAT
* *
100869485 GTATTATGTAT
1 ATATTATATAT
100869496 ATATT
1 ATATT
100869501 TTTAATATCA
Statistics
Matches: 52, Mismatches: 14, Indels: 6
0.72 0.19 0.08
Matches are distributed among these distances:
9 2 0.04
10 10 0.19
11 37 0.71
12 3 0.06
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
ATATTATATAT
Found at i:100869445 original size:13 final size:13
Alignment explanation
Indices: 100869424--100869508 Score: 52
Period size: 13 Copynumber: 6.6 Consensus size: 13
100869414 TAACACCATA
*
100869424 TTATGTATATATT
1 TTATATATATATT
100869437 TTATATATAT-TAT
1 TTATATATATAT-T
* *
100869450 ATATATATGTATT
1 TTATATATATATT
*
100869463 TTTTAATATTATATT
1 TTAT-ATA-TATATT
*
100869478 TT-TATATGTATT
1 TTATATATATATT
* *
100869490 ATGTATATAT-TT
1 TTATATATATATT
100869502 TTA-ATAT
1 TTATATAT
100869509 CACATTATTC
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
11 4 0.07
12 10 0.18
13 30 0.54
14 5 0.09
15 7 0.12
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (13 bp):
TTATATATATATT
Found at i:100869675 original size:20 final size:20
Alignment explanation
Indices: 100869638--100869676 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
100869628 TGTTCTTGGT
*
100869638 ATATATATATTTCTTTATTC
1 ATATATATATTTCATTATTC
100869658 ATATAT-TATTATCATTATT
1 ATATATATATT-TCATTATT
100869677 TTCCACTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (20 bp):
ATATATATATTTCATTATTC
Found at i:100869830 original size:11 final size:11
Alignment explanation
Indices: 100869750--100869836 Score: 51
Period size: 11 Copynumber: 8.1 Consensus size: 11
100869740 ATTTTCAATA
100869750 TATGTATATA-
1 TATGTATATAT
*
100869760 TATGTGTATATT
1 TATGTATATA-T
100869772 TATGTA-ATATT
1 TATGTATATA-T
* *
100869783 TGTGTTTCAATAT
1 TATGTAT--ATAT
100869796 TAT-TAT-TAT
1 TATGTATATAT
* *
100869805 TAT-T-TCTAG
1 TATGTATATAT
100869814 TATGTATATAT
1 TATGTATATAT
100869825 TATGTATATAT
1 TATGTATATAT
100869836 T
1 T
100869837 TTTAATACTA
Statistics
Matches: 60, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
8 1 0.02
9 12 0.20
10 10 0.17
11 24 0.40
12 7 0.12
13 3 0.05
14 3 0.05
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.56
Consensus pattern (11 bp):
TATGTATATAT
Found at i:100869864 original size:27 final size:27
Alignment explanation
Indices: 100869833--100869885 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
100869823 ATTATGTATA
*
100869833 TATTTTTAATACTACGTATATATTTTT
1 TATTTCTAATACTACGTATATATTTTT
* *
100869860 TATTTCTATTATTACGTATATATTTT
1 TATTTCTAATACTACGTATATATTTT
100869886 AATACATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.28, C:0.08, G:0.04, T:0.60
Consensus pattern (27 bp):
TATTTCTAATACTACGTATATATTTTT
Found at i:100872614 original size:16 final size:16
Alignment explanation
Indices: 100872593--100872623 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
100872583 CTAAACCTGT
100872593 CCCAAACCCATTTTTA
1 CCCAAACCCATTTTTA
100872609 CCCAAACCCATTTTT
1 CCCAAACCCATTTTT
100872624 CAAGCCTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.39, G:0.00, T:0.32
Consensus pattern (16 bp):
CCCAAACCCATTTTTA
Found at i:100875790 original size:41 final size:41
Alignment explanation
Indices: 100875737--100875816 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
100875727 TTTTAAAATA
* * *
100875737 CAGAGCAATAGCGGCGCTTTTGTTAGAATGCCGCTAAAAAC
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC
*
100875778 CAGAGCACTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
100875817 GTCATATAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.31, C:0.24, G:0.25, T:0.20
Consensus pattern (41 bp):
CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAAC
Found at i:100879516 original size:25 final size:25
Alignment explanation
Indices: 100879488--100879561 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
100879478 TTTATGTCTA
100879488 TTTTATGATATATTAAAATTAATCT
1 TTTTATGATATATTAAAATTAATCT
*
100879513 TTTTA--AGA-ATT---ATTAAT-T
1 TTTTATGATATATTAAAATTAATCT
100879531 ATTTTATGATATATTAAAATTAATCT
1 -TTTTATGATATATTAAAATTAATCT
100879557 TTTTA
1 TTTTA
100879562 AGAATTTATG
Statistics
Matches: 39, Mismatches: 2, Indels: 16
0.68 0.04 0.28
Matches are distributed among these distances:
18 1 0.03
19 11 0.28
21 2 0.05
22 6 0.15
23 2 0.05
25 16 0.41
26 1 0.03
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTTATGATATATTAAAATTAATCT
Found at i:100893604 original size:19 final size:19
Alignment explanation
Indices: 100893562--100893605 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
100893552 AATTTTAAAT
100893562 ATTTTTAGTTTTTATATAA
1 ATTTTTAGTTTTTATATAA
* *
100893581 CTTTTTCGTTTTT-TATAA
1 ATTTTTAGTTTTTATATAA
100893599 GATTTTT
1 -ATTTTT
100893606 TATATTTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.66
Consensus pattern (19 bp):
ATTTTTAGTTTTTATATAA
Done.