Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 35 of 193
Found at i:10772700 original size:29 final size:29
Alignment explanation
Indices: 10772591--10772700 Score: 95
Period size: 29 Copynumber: 3.8 Consensus size: 29
10772581 TTAACCCTTA
*
10772591 AAATTTTTAAAAATTATA-TTTTGACCCC-
1 AAATTTTTAAAAATTACATTTTTG-CCCCT
* **
10772619 AAACTTTTATAAAATTACATTTTAACCCCT
1 AAATTTTTA-AAAATTACATTTTTGCCCCT
*
10772649 -AATCTTTTCCAAAATTACA-TTTTGCCCCT
1 AAAT-TTTT-AAAAATTACATTTTTGCCCCT
10772678 AAATTTTTAAAAACTT-CATTTTT
1 AAATTTTTAAAAA-TTACATTTTT
10772701 AACCCCATTT
Statistics
Matches: 65, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
28 14 0.22
29 32 0.49
30 19 0.29
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.44
Consensus pattern (29 bp):
AAATTTTTAAAAATTACATTTTTGCCCCT
Found at i:10776362 original size:21 final size:20
Alignment explanation
Indices: 10776315--10776364 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
10776305 GAATTTGTCC
10776315 AAAAAA-TTATACTTTTTAA
1 AAAAAATTTATACTTTTTAA
** *
10776334 AATCAATTTATATTTCTTTAA
1 AAAAAATTTATACTT-TTTAA
10776355 AAAAAATTTA
1 AAAAAATTTA
10776365 AATATTTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 4 0.17
20 7 0.29
21 13 0.54
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAAAATTTATACTTTTTAA
Found at i:10779639 original size:3 final size:3
Alignment explanation
Indices: 10779631--10779657 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
10779621 CTACATGATG
10779631 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
10779658 AATAGCGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:10780735 original size:21 final size:22
Alignment explanation
Indices: 10780692--10780734 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10780682 AACCTAAACT
*
10780692 TTAAAATTTGAAAAATAAAAAA
1 TTAAAATTTAAAAAATAAAAAA
*
10780714 TTAAATTTTAAAAAATAAAAA
1 TTAAAATTTAAAAAATAAAAA
10780735 TACAGAGACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
TTAAAATTTAAAAAATAAAAAA
Found at i:10783070 original size:186 final size:186
Alignment explanation
Indices: 10782756--10783127 Score: 726
Period size: 186 Copynumber: 2.0 Consensus size: 186
10782746 GAGAGTTCAA
10782756 GTTATGACCATTTTAATAAAAATTTATAATTTCCGTCATAATCACGTCCAGAAATTCTACCCACG
1 GTTATGACCATTTTAATAAAAATTTATAATTTCCGTCATAATCACGTCCAGAAATTCTACCCACG
*
10782821 CAGTCTTTATTAAAATGGTCATAACTTGAACTCTCAAACTCGAAATCGAGTGATTCAAAATACAT
66 CAGTCTTTATTAAAATGGTCATAACTTGAACTCCCAAACTCGAAATCGAGTGATTCAAAATACAT
10782886 TTCGAAACTAAGAGATAGATCTTCAAACACCATGAAGACATCTAAATCCAGAAATG
131 TTCGAAACTAAGAGATAGATCTTCAAACACCATGAAGACATCTAAATCCAGAAATG
*
10782942 GTTATGACCATTTTAATAAAAATTTGTAATTTCCGTCATAATCACGTCCAGAAATTCTACCCACG
1 GTTATGACCATTTTAATAAAAATTTATAATTTCCGTCATAATCACGTCCAGAAATTCTACCCACG
10783007 CAGTCTTTATTAAAATGGTCATAACTTGAACTCCCAAACTCGAAATCGAGTGATTCAAAATACAT
66 CAGTCTTTATTAAAATGGTCATAACTTGAACTCCCAAACTCGAAATCGAGTGATTCAAAATACAT
10783072 TTCGAAACTAAGAGATAGATCTTCAAACACCATGAAGACATCTAAATCCAGAAATG
131 TTCGAAACTAAGAGATAGATCTTCAAACACCATGAAGACATCTAAATCCAGAAATG
10783128 CTTGGATCCC
Statistics
Matches: 184, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
186 184 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (186 bp):
GTTATGACCATTTTAATAAAAATTTATAATTTCCGTCATAATCACGTCCAGAAATTCTACCCACG
CAGTCTTTATTAAAATGGTCATAACTTGAACTCCCAAACTCGAAATCGAGTGATTCAAAATACAT
TTCGAAACTAAGAGATAGATCTTCAAACACCATGAAGACATCTAAATCCAGAAATG
Found at i:10784582 original size:32 final size:32
Alignment explanation
Indices: 10784543--10784613 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
10784533 TTTTTAAAGG
* *
10784543 TTGATTAATACAAATGC-TTGAAGAAATTAGGA
1 TTGATTAATACAAA-CCATTGAAGAAATTAAGA
10784575 TTGATTAATACAAACCATTGAAGAAATTAAGA
1 TTGATTAATACAAACCATTGAAGAAATTAAGA
10784607 TTGATTA
1 TTGATTA
10784614 GAAATTTAGC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 1 0.03
32 35 0.97
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.32
Consensus pattern (32 bp):
TTGATTAATACAAACCATTGAAGAAATTAAGA
Found at i:10785935 original size:28 final size:28
Alignment explanation
Indices: 10785835--10785943 Score: 103
Period size: 28 Copynumber: 3.9 Consensus size: 28
10785825 GCATAAGTGA
* *
10785835 GTTCACATAGGTGAG-TCGTTCATAGGGG
1 GTTCACATAGGTGAGTTCG-CCATAGAGG
* * **
10785863 GTTCGCATAGGTGAGGTCGCTTTAGAGG
1 GTTCACATAGGTGAGTTCGCCATAGAGG
* * * *
10785891 GTTCGCATCGGAGAGTTTGCCATAGAGG
1 GTTCACATAGGTGAGTTCGCCATAGAGG
*
10785919 TTTCACATAGGTGAGTTCGCCATAG
1 GTTCACATAGGTGAGTTCGCCATAG
10785944 TAGTTCGCCT
Statistics
Matches: 64, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
28 61 0.95
29 3 0.05
ACGTcount: A:0.21, C:0.17, G:0.34, T:0.28
Consensus pattern (28 bp):
GTTCACATAGGTGAGTTCGCCATAGAGG
Found at i:10785950 original size:13 final size:13
Alignment explanation
Indices: 10785932--10786023 Score: 55
Period size: 13 Copynumber: 6.9 Consensus size: 13
10785922 CACATAGGTG
10785932 AGTTCGCCATAGT
1 AGTTCGCCATAGT
*
10785945 AGTTCGCCTTAG-
1 AGTTCGCCATAGT
*
10785957 GGTTCGCCATATGT
1 AGTTCGCCATA-GT
* * *
10785971 GAGTTC-ACATGGG
1 -AGTTCGCCATAGT
*
10785984 GGTTCGCCATAGGT
1 AGTTCGCCATA-GT
*
10785998 -GTTCGCCAAATGT
1 AGTTCGCCATA-GT
10786011 GAGTTCGCCATAG
1 -AGTTCGCCATAG
10786024 GTAAGTCTGC
Statistics
Matches: 58, Mismatches: 14, Indels: 13
0.68 0.16 0.15
Matches are distributed among these distances:
12 13 0.22
13 27 0.47
14 5 0.09
15 13 0.22
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (13 bp):
AGTTCGCCATAGT
Found at i:10785974 original size:40 final size:41
Alignment explanation
Indices: 10785924--10786046 Score: 126
Period size: 40 Copynumber: 3.0 Consensus size: 41
10785914 AGAGGTTTCA
* * *
10785924 CATAGGTGAGTTCGCCATAGTAGTTCGCCTTAGG-GTTCGC
1 CATATGTGAGTTCGCCATAGGAGTTCGCCATAGGTGTTCGC
* * *
10785964 CATATGTGAGTTC-ACATGGGGGTTCGCCATAGGTGTTCGC
1 CATATGTGAGTTCGCCATAGGAGTTCGCCATAGGTGTTCGC
* *
10786004 CAAATGTGAGTTCGCCATAGGTAAG-TCTGCCATAGGGGTTCGC
1 CATATGTGAGTTCGCCATAGG--AGTTC-GCCATAGGTGTTCGC
10786047 TAGGTATAAG
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
39 15 0.22
40 30 0.45
41 5 0.07
42 2 0.03
43 15 0.22
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (41 bp):
CATATGTGAGTTCGCCATAGGAGTTCGCCATAGGTGTTCGC
Found at i:10786963 original size:91 final size:91
Alignment explanation
Indices: 10786864--10787036 Score: 285
Period size: 91 Copynumber: 1.9 Consensus size: 91
10786854 TCGTTCTTAG
* *
10786864 TTTTATTTTGTTTTTCTCATTTTATGGGTTTCTAAACTTACCTTTCTGGTCGAAGGTTAATT-AA
1 TTTTATTTTGTTTTTCTCATTTTATGGGTTTCTAAACTTACCTTTATGGTCAAAGGTTAATTGAA
10786928 AGTTTGATTTAATAAATTTGTTTTTAC
66 A-TTTGATTTAATAAATTTGTTTTTAC
* * *
10786955 TTTTATTTTGTTTTTCTTATTTTATGTGTTTCTAGACTTACCTTTATGGTCAAAGGTTAATTGAA
1 TTTTATTTTGTTTTTCTCATTTTATGGGTTTCTAAACTTACCTTTATGGTCAAAGGTTAATTGAA
10787020 ATTTGATTTAATAAATT
66 ATTTGATTTAATAAATT
10787037 CATGAGACTT
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
91 73 0.96
92 3 0.04
ACGTcount: A:0.24, C:0.09, G:0.13, T:0.54
Consensus pattern (91 bp):
TTTTATTTTGTTTTTCTCATTTTATGGGTTTCTAAACTTACCTTTATGGTCAAAGGTTAATTGAA
ATTTGATTTAATAAATTTGTTTTTAC
Found at i:10791761 original size:28 final size:28
Alignment explanation
Indices: 10791719--10791798 Score: 133
Period size: 28 Copynumber: 2.9 Consensus size: 28
10791709 TTGAAACACA
10791719 TTATTCTAATCAAAATAAAATAAATGAC
1 TTATTCTAATCAAAATAAAATAAATGAC
*
10791747 TTATTCTAATTAAAATAAAATAAATGAC
1 TTATTCTAATCAAAATAAAATAAATGAC
* *
10791775 ATATTCTAATGAAAATAAAATAAA
1 TTATTCTAATCAAAATAAAATAAA
10791799 AAAATGTAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (28 bp):
TTATTCTAATCAAAATAAAATAAATGAC
Found at i:10796849 original size:16 final size:17
Alignment explanation
Indices: 10796828--10796860 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10796818 TATACTATAG
10796828 ATTTTA-ATAATTATTA
1 ATTTTATATAATTATTA
*
10796844 ATTTTATATATTTATTA
1 ATTTTATATAATTATTA
10796861 TACATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTATATAATTATTA
Found at i:10805831 original size:26 final size:26
Alignment explanation
Indices: 10805794--10805873 Score: 81
Period size: 26 Copynumber: 3.1 Consensus size: 26
10805784 ATTTTGGGCG
*
10805794 CAATTCTAGACATGCTCATACAGCGA
1 CAATTCTGGACATGCTCATACAGCGA
* * * *
10805820 TAATTCTGGACAAGTTTC-TACAGTGA
1 CAATTCTGGACATG-CTCATACAGCGA
* *
10805846 CAATTCTGGACATGCTTATGCAGCGA
1 CAATTCTGGACATGCTCATACAGCGA
10805872 CA
1 CA
10805874 TTAAAAGTAA
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
25 1 0.02
26 38 0.93
27 2 0.05
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (26 bp):
CAATTCTGGACATGCTCATACAGCGA
Found at i:10806103 original size:17 final size:18
Alignment explanation
Indices: 10806060--10806105 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
10806050 TAAGTTTTTC
*
10806060 TAAAATTTAAACTTAATAA
1 TAAAA-TTAAATTTAATAA
*
10806079 -AAATTTAAATTTAA-AA
1 TAAAATTAAATTTAATAA
10806095 TAAAATTAAAT
1 TAAAATTAAAT
10806106 GTTCAGATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.09
17 18 0.78
18 3 0.13
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAAATTAAATTTAATAA
Found at i:10806800 original size:30 final size:29
Alignment explanation
Indices: 10806768--10806986 Score: 105
Period size: 30 Copynumber: 7.4 Consensus size: 29
10806758 ATAGGTCCCT
10806768 AAACTATTCAAAAATTACCATTTTACCCC
1 AAACTATTCAAAAATTACCATTTTACCCC
*
10806797 TAAACT-TTCCAAAATT-CCATTTTTAACCCC
1 -AAACTATTCAAAAATTACCA-TTTT-ACCCC
** *
10806827 AATTTCA-CCAAAAATTACCATTTTACCCTC
1 AAACT-ATTCAAAAATTACCATTTTACCC-C
* * *
10806857 GAACT-TTCCAAAA-TCCCATTTTTAACCCC
1 AAACTATTCAAAAATTACCA-TTTT-ACCCC
** *
10806886 AATTTCA-CCAAAAATTACCATTTTATCCCC
1 AAACT-ATTCAAAAATTACCATTTTA-CCCC
* * *
10806916 GAACT-TTCCAAAA-TCCCATTTTAACCCC
1 AAACTATTCAAAAATTACCATTTT-ACCCC
** *
10806944 AATTTCA-CCAAAAATTACCATTTTACCCC
1 AAACT-ATTCAAAAATTACCATTTTACCCC
* *
10806973 TGAACTTTTCAAAA
1 -AAACTATTCAAAA
10806987 TCTTATTTTT
Statistics
Matches: 135, Mismatches: 34, Indels: 40
0.65 0.16 0.19
Matches are distributed among these distances:
28 21 0.16
29 49 0.36
30 58 0.43
31 7 0.05
ACGTcount: A:0.36, C:0.30, G:0.01, T:0.32
Consensus pattern (29 bp):
AAACTATTCAAAAATTACCATTTTACCCC
Found at i:10806986 original size:117 final size:118
Alignment explanation
Indices: 10806776--10807148 Score: 542
Period size: 117 Copynumber: 3.2 Consensus size: 118
10806766 CTAAACTATT
* *
10806776 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAA
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCAAAAA
* *
10806841 TTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCAATTTCAC
66 TTACCATTTTACCCTCGAACTTTTCAAAATCTCATTTTTAACCCCAATTTCAC
10806894 CAAAAATTACCATTTTATCCCC-GAACTTTCCAAAATCCCA-TTTTAACCCCAATTTCACCAAAA
1 CAAAAATTACCATTTTA-CCCCTGAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCAAAA
* * *
10806957 ATTACCATTTTACCC-CTGAACTTTTCAAAATCTTATTTTTAACCTCGATTTCA-
65 ATTACCATTTTACCCTC-GAACTTTTCAAAATCTCATTTTTAACCCCAATTTCAC
* * * *
10807010 CAAAAATTACCATTGTACCCCTGAACTTTCCAAAATCTCATTTTTAACCCCGATTTCACAAAAAA
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCAAAAA
* * *
10807075 TTATCGTTTTACCCTCAAAC-TTTCTAAAATCTCATTTTTAA-CCCAGATTTCAC
66 TTACCATTTTACCCTCGAACTTTTC-AAAATCTCATTTTTAACCCCA-ATTTCAC
10807128 CAAAAATTACCATTTTACCCC
1 CAAAAATTACCATTTTACCCC
10807149 CGAAAGTCAA
Statistics
Matches: 229, Mismatches: 18, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
115 4 0.02
116 40 0.17
117 127 0.55
118 54 0.24
119 4 0.02
ACGTcount: A:0.34, C:0.29, G:0.02, T:0.34
Consensus pattern (118 bp):
CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCCCATTTTTAACCCCAATTTCACCAAAAA
TTACCATTTTACCCTCGAACTTTTCAAAATCTCATTTTTAACCCCAATTTCAC
Found at i:10807132 original size:29 final size:29
Alignment explanation
Indices: 10807039--10807132 Score: 70
Period size: 29 Copynumber: 3.2 Consensus size: 29
10807029 CCTGAACTTT
*
10807039 CCAAAATCTCATTTTTAACCCCGATTTCA
1 CCAAAATCTCATTTTTAACCCAGATTTCA
* * *
10807068 CAAAAAAT-T-ATCGTTTTACCCTCAAACTTT--
1 C-CAAAATCTCAT--TTTTAACC-CAGA-TTTCA
*
10807098 CTAAAATCTCATTTTTAACCCAGATTTCA
1 CCAAAATCTCATTTTTAACCCAGATTTCA
10807127 CCAAAA
1 CCAAAA
10807133 ATTACCATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 18
0.65 0.11 0.24
Matches are distributed among these distances:
27 3 0.06
28 5 0.10
29 19 0.40
30 14 0.29
31 4 0.08
32 3 0.06
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (29 bp):
CCAAAATCTCATTTTTAACCCAGATTTCA
Found at i:10807170 original size:59 final size:59
Alignment explanation
Indices: 10806776--10807152 Score: 528
Period size: 59 Copynumber: 6.4 Consensus size: 59
10806766 CTAAACTATT
**
10806776 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAAT-TCCATTTTTAACCCCAATTTCAC
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCT-CATTTTTAACCCCAATTTCAC
* *
10806835 CAAAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTAACCCCAATTTCAC
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCTCATTTTTAACCCCAATTTCAC
* *
10806894 CAAAAATTACCATTTTATCCCCGAACTTTCCAAAATCCCA-TTTTAACCCCAATTTCAC
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCTCATTTTTAACCCCAATTTCAC
* * * * *
10806952 CAAAAATTACCATTTTACCCCTGAACTTTTCAAAATCTTATTTTTAACCTCGATTTCA-
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCTCATTTTTAACCCCAATTTCAC
* * *
10807010 CAAAAATTACCATTGTACCCCTGAACTTTCCAAAATCTCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCTCATTTTTAACCCCAATTTCAC
* * * * * *
10807069 AAAAAATTATCGTTTTACCCTCAAACTTTCTAAAATCTCATTTTTAA-CCCAGATTTCAC
1 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCTCATTTTTAACCCCA-ATTTCAC
10807128 CAAAAATTACCATTTTACCCCCGAA
1 CAAAAATTACCATTTTACCCCCGAA
10807153 AGTCAAAAAT
Statistics
Matches: 283, Mismatches: 31, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
58 110 0.39
59 173 0.61
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATCTCATTTTTAACCCCAATTTCAC
Found at i:10819675 original size:195 final size:195
Alignment explanation
Indices: 10819291--10820023 Score: 1200
Period size: 195 Copynumber: 3.8 Consensus size: 195
10819281 TTCAACAAGT
* * *
10819291 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTTAACGCTC-AACACAAGCAAA
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAATACGAGCAAA
* * *
10819355 TCTTTGAACCC-AGCTTCCAGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAGCTT
66 ACTTCGAACCCGA-CTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAGCTT
* * *
10819419 CCTGATGAGACACAGGGAAGTAGACCAAATTCGTCTTCCTGAGGAGATCTAGAAAAGCGAATTAA
130 CCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAG-AAAGCGAATTAA
10819484 GC
194 GC
10819486 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAATACGAGCAAA
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAATACGAGCAAA
10819551 ACTTCGAACCCGACTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAGCTTC
66 ACTTCGAACCCGACTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAGCTTC
* * *
10819616 CTGATGAGACACAGAGAAGTGGACCAAATTCATCTTCCTAAGGAGATCCAGAGAGCGAATTAAGC
131 CTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAAAGCGAATTAAGC
* * *
10819681 GAGGCGGTCATCTTCCTAATGAGATACGGAGAAGAATACCAACTCAACGCTCAAATGCGAGCAAA
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAATACGAGCAAA
* *
10819746 CCTTCGAACTCGACTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAGCTTC
66 ACTTCGAACCCGACTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAGCTTC
*
10819811 CTGATGAGACACAGAAAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAAAGCGAATTAAGC
131 CTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAAAGCGAATTAAGC
* *
10819876 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAAAACCAACTCAACGCTCAAATGCGAGCAAA
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAATACGAGCAAA
* * * *
10819941 ACTTCGAACCCGGCTTCCTGATGAGACGCTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTC
66 ACTTCGAACCCGACTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAGCTTC
* *
10820006 CTGATGAGATATAGAGAA
131 CTGATGAGACACAGAGAA
10820024 AAAAACACCA
Statistics
Matches: 503, Mismatches: 33, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
195 386 0.77
196 116 0.23
197 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (195 bp):
GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAATACGAGCAAA
ACTTCGAACCCGACTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAGCTTC
CTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAAAGCGAATTAAGC
Found at i:10820094 original size:116 final size:116
Alignment explanation
Indices: 10819887--10820139 Score: 393
Period size: 116 Copynumber: 2.2 Consensus size: 116
10819877 AGGCGGTCAT
*
10819887 CTTCCTGATGAGATACAGAG-AAGAAAACCAACTCAACGCTCAAATGCGAGCAAAACTTCGAACC
1 CTTCCTGATGAGATACAGAGAAAAAAAACCAACTCAACGCTCAAATGCGAGCAAAACTTCGAACC
** * * *
10819951 CGGCTTCCTGATGAGACGCTGAGAAGCAGGTCGAAGCAATAAAATGGTTAG
66 CAACTTCCTGATGAGACACTGAAAAGCAGGTCGAAACAATAAAATGGTTAG
* * *
10820002 CTTCCTGATGAGATATAGAGAAAAAAACACCAACTCAACGCTC-AATGCGAGCAAATCTTTGAAC
1 CTTCCTGATGAGATACAGAGAAAAAAA-ACCAACTCAACGCTCAAATGCGAGCAAAACTTCGAAC
10820066 CCAACTTCCTGATGAGACACTGAAAAGCAGGTCGAAACAATAAAATGGTTAG
65 CCAACTTCCTGATGAGACACTGAAAAGCAGGTCGAAACAATAAAATGGTTAG
*
10820118 CTTTCTGATGAGATACAGAGAA
1 CTTCCTGATGAGATACAGAGAA
10820140 GTGGACCAAA
Statistics
Matches: 125, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
115 19 0.15
116 91 0.73
117 15 0.12
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (116 bp):
CTTCCTGATGAGATACAGAGAAAAAAAACCAACTCAACGCTCAAATGCGAGCAAAACTTCGAACC
CAACTTCCTGATGAGACACTGAAAAGCAGGTCGAAACAATAAAATGGTTAG
Found at i:10821360 original size:29 final size:28
Alignment explanation
Indices: 10821313--10821839 Score: 146
Period size: 30 Copynumber: 18.1 Consensus size: 28
10821303 GCTTATAGGT
* *
10821313 CCCTAAACTATTCAAAAATTACCATTTTA
1 CCCTGAACT-TTCCAAAATTACCATTTTA
10821342 CCCTTGAACTTTCCAAAATT-CCATTTTTA
1 CCC-TGAACTTTCCAAAATTACCA-TTTTA
* *
10821371 ACCTCG-A-TTTCACCAAAAAATACCATTTTA
1 CCCT-GAACTTT--CC-AAAATTACCATTTTA
**
10821401 CCCCCAAACTTTCCAAAATT-CCATTTTTA
1 -CCCTGAACTTTCCAAAATTACCA-TTTTA
* *
10821430 ACCTCAA-TTTCACCAAAAATTACCATTTTA
1 CCCTGAACTTT--CC-AAAATTACCATTTTA
10821460 CCCCTGAACTTTCCAAAATT-CCATTTTAA
1 -CCCTGAACTTTCCAAAATTACCATTTT-A
* *
10821489 CCCCG-ATTTTACCAAAAATTACCATTTTA
1 CCCTGAACTTT-CC-AAAATTACCATTTTA
* * *
10821518 TCCCTAAACTTTCTAAAA-TCCCATTTTTA
1 -CCCTGAACTTTCCAAAATTACCA-TTTTA
* * * *
10821547 ACCTCG-ATTTTACTAAAAATTACCATTTTC
1 CCCT-GAACTTT-C-CAAAATTACCATTTTA
** *
10821577 CCCCAAACTTTCCAAAATCTTA--TTTTTAA
1 CCCTGAACTTTCCAAAA--TTACCATTTT-A
** * *
10821606 CCCTGATTTTATCAAAAATTACAATTTTA
1 CCCTGAACTT-TCCAAAATTACCATTTTA
*
10821635 CCCCTAAACTTTCCAAAA-T-CTCATTTTTTA
1 -CCCTGAACTTTCCAAAATTAC-CA--TTTTA
*
10821665 -CCTCG-A-TTTCACAAAAATTACCATTGTA
1 CCCT-GAACTTTC-C-AAAATTACCATTTTA
* * *
10821693 CCCCTGAATTTTCTAAAA-T-CTTATTTTA
1 -CCCTGAACTTTCCAAAATTAC-CATTTTA
* * * *
10821721 ACCTTAATTTTACCAAAAATTACCGTTTTA
1 CCCTGAACTTT-CC-AAAATTACCATTTTA
* *
10821751 CCTTCGAACTTTCTAAAA--ACCCATTTTAA
1 CCCT-GAACTTTCCAAAATTA-CCATTTT-A
*
10821780 CCC--AAATTTCACTAAAAATTACCATTTTA
1 CCCTGAACTTTC-C--AAAATTACCATTTTA
* ** * *
10821809 CCCCGAA-AGTCAAAAATTACCATTTCA
1 CCCTGAACTTTCCAAAATTACCATTTTA
10821836 CCCT
1 CCCT
10821840 CGGGCATCCG
Statistics
Matches: 367, Mismatches: 68, Indels: 128
0.65 0.12 0.23
Matches are distributed among these distances:
26 6 0.02
27 43 0.12
28 71 0.19
29 100 0.27
30 105 0.29
31 36 0.10
32 6 0.02
ACGTcount: A:0.35, C:0.27, G:0.02, T:0.36
Consensus pattern (28 bp):
CCCTGAACTTTCCAAAATTACCATTTTA
Found at i:10821503 original size:58 final size:59
Alignment explanation
Indices: 10821325--10821812 Score: 530
Period size: 58 Copynumber: 8.4 Consensus size: 59
10821315 CTAAACTATT
* *
10821325 CAAAAATTACCATTTTACCCTTGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAC
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAC
* * *
10821384 CAAAAAATACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCAATTTCAC
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAC
* * *
10821443 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATTCCA-TTTTAACCCCGATTTTAC
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAC
* * * *
10821501 CAAAAATTACCATTTTATCCCTAAACTTTCTAAAATCCCATTTTTAACCTCGATTTTAC
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAC
* * * * *
10821560 TAAAAATTACCATTTT-CCCCCAAACTTTCCAAAA-TCTTATTTTTAACC-CTGATTTTAT
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTC-CATTTTTAACCTC-GATTTCAC
* *
10821618 CAAAAATTACAATTTTACCCCTAAACTTTCCAAAA-TCTCATTTTTTACCTCGATTTCA-
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTC-CATTTTTAACCTCGATTTCAC
* * * * * ** *
10821676 CAAAAATTACCATTGTACCCCTGAATTTTCTAAAA-T-CTTATTTTAACCTTAATTTTAC
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCAT-TTTTAACCTCGATTTCAC
* * * * ** *
10821734 CAAAAATTACCGTTTTA-CCTTCGAACTTTCTAAAAACCCA-TTTTAACC-CAAATTTCAC
1 CAAAAATTACCATTTTACCCCT-AAACTTTCCAAAATTCCATTTTTAACCTC-GATTTCAC
*
10821792 TAAAAATTACCATTTTACCCC
1 CAAAAATTACCATTTTACCCC
10821813 GAAAGTCAAA
Statistics
Matches: 367, Mismatches: 50, Indels: 24
0.83 0.11 0.05
Matches are distributed among these distances:
56 2 0.01
57 18 0.05
58 185 0.50
59 160 0.44
60 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.37
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCAC
Found at i:10821536 original size:117 final size:118
Alignment explanation
Indices: 10821325--10821812 Score: 580
Period size: 117 Copynumber: 4.2 Consensus size: 118
10821315 CTAAACTATT
* * *
10821325 CAAAAATTACCATTTTACCCTTGAACTTTCCAAAAT-TCCATTTTTAACCTCGATTTCACCAAAA
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCT-CATTTTTAACCCCGATTTTACCAAAA
* * *
10821389 AATACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCTCAATTTCAC
65 ATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCTCAATTTCAC
10821443 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAAT-TCCA-TTTTAACCCCGATTTTACCAAAA
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCT-CATTTTTAACCCCGATTTTACCAAAA
* * * *
10821506 ATTACCATTTTATCCCTAAACTTTCTAAAATCCCATTTTTAACCTCGATTTTAC
65 ATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCTCAATTTCAC
* ** * * *
10821560 TAAAAATTACCATTTT-CCCCCAAACTTTCCAAAATCTTATTTTTAACCCTGATTTTATCAAAAA
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCTCATTTTTAACCCCGATTTTACCAAAAA
* * * *
10821624 TTACAATTTTACCCCTAAACTTTCCAAAATCTCATTTTTTACCTCGATTTCA-
66 TTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCTCAATTTCAC
* * * * ***
10821676 CAAAAATTACCATTGTACCCCTGAATTTTCTAAAATCTTA-TTTTAACCTTAATTTTACCAAAAA
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCTCATTTTTAACCCCGATTTTACCAAAAA
* * * * *
10821740 TTACCGTTTTA-CCTTCGAACTTTCTAAAAACCCA-TTTTAACC-CAAATTTCAC
66 TTACCATTTTACCCCT-AAACTTTCCAAAATCCCATTTTTAACCTC-AATTTCAC
*
10821792 TAAAAATTACCATTTTACCCC
1 CAAAAATTACCATTTTACCCC
10821813 GAAAGTCAAA
Statistics
Matches: 322, Mismatches: 42, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
114 1 0.00
115 16 0.05
116 95 0.30
117 171 0.53
118 39 0.12
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.37
Consensus pattern (118 bp):
CAAAAATTACCATTTTACCCCTGAACTTTCCAAAATCTCATTTTTAACCCCGATTTTACCAAAAA
TTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAACCTCAATTTCAC
Found at i:10823889 original size:17 final size:17
Alignment explanation
Indices: 10823863--10823917 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
10823853 TACAATAACA
*
10823863 AATGGAAATGCAATGAC
1 AATGAAAATGCAATGAC
* *
10823880 AATGACAATGCAGTGAC
1 AATGAAAATGCAATGAC
* *
10823897 AATGAAAATGTAATAAC
1 AATGAAAATGCAATGAC
10823914 AATG
1 AATG
10823918 GGAATGTGAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 31 1.00
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.20
Consensus pattern (17 bp):
AATGAAAATGCAATGAC
Found at i:10830056 original size:18 final size:18
Alignment explanation
Indices: 10830033--10830067 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10830023 ATACATTAGA
10830033 TTGCGTCGACATCTTTGG
1 TTGCGTCGACATCTTTGG
*
10830051 TTGCGTCGACATTTTTG
1 TTGCGTCGACATCTTTG
10830068 AAGGTCGGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.20, G:0.26, T:0.43
Consensus pattern (18 bp):
TTGCGTCGACATCTTTGG
Found at i:10833001 original size:26 final size:26
Alignment explanation
Indices: 10832972--10833041 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
10832962 ATGCAGTGAC
10832972 AATTCTGGACATGCTCATACAACGAT
1 AATTCTGGACATGCTCATACAACGAT
* * *
10832998 AATTCTGGACAAGTTTC-TACAGCGAT
1 AATTCTGGACATG-CTCATACAACGAT
*
10833024 AATTCTGGACGTGCTCAT
1 AATTCTGGACATGCTCAT
10833042 GCAGCGACAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
25 2 0.06
26 32 0.89
27 2 0.06
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (26 bp):
AATTCTGGACATGCTCATACAACGAT
Found at i:10836065 original size:2 final size:2
Alignment explanation
Indices: 10836053--10836104 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
10836043 GTAATCCACT
*
10836053 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10836095 TA TA TA TA TA
1 TA TA TA TA TA
10836105 CACAACACTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:10836867 original size:18 final size:17
Alignment explanation
Indices: 10836841--10836875 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
10836831 TAATTAATTT
10836841 ATTAGATTTATCAATGTA
1 ATTAGATTTATC-ATGTA
*
10836859 ATTATATTTATCATGTA
1 ATTAGATTTATCATGTA
10836876 CGTTTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.49
Consensus pattern (17 bp):
ATTAGATTTATCATGTA
Found at i:10837672 original size:20 final size:20
Alignment explanation
Indices: 10837649--10837701 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
10837639 AAGTCCGTAA
* *
10837649 AAATATTGATAAGTTGTTAG
1 AAATATTGATAAATTCTTAG
*
10837669 AAATATTAATAAATTCTTAG
1 AAATATTGATAAATTCTTAG
* *
10837689 ATATTTTGATAAA
1 AAATATTGATAAA
10837702 AAACTTTTCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.42
Consensus pattern (20 bp):
AAATATTGATAAATTCTTAG
Found at i:10837881 original size:6 final size:6
Alignment explanation
Indices: 10837870--10837902 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
10837860 CACAGATTAA
10837870 AATTCT AATTCT AATTCT AATTCT AATTCT AAT
1 AATTCT AATTCT AATTCT AATTCT AATTCT AAT
10837903 GTACTAGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTCT
Found at i:10844786 original size:29 final size:29
Alignment explanation
Indices: 10844723--10844788 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
10844713 GTTAACCAAA
10844723 ACCGTGTGGTCCACACGACTTGGCACACG
1 ACCGTGTGGTCCACACGACTTGGCACACG
* * * **
10844752 ATCGTGTGGTTCACACGGCTTGGCACATT
1 ACCGTGTGGTCCACACGACTTGGCACACG
10844781 ACCGTGTG
1 ACCGTGTG
10844789 ATGTTGATAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.18, C:0.29, G:0.29, T:0.24
Consensus pattern (29 bp):
ACCGTGTGGTCCACACGACTTGGCACACG
Found at i:10862513 original size:15 final size:16
Alignment explanation
Indices: 10862481--10862521 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
10862471 TTTACGATAA
10862481 TAATAATTTTATTATTT
1 TAATAA-TTTATTATTT
10862498 TAATAATTTA-TATTT
1 TAATAATTTATTATTT
*
10862513 TTATAATTT
1 TAATAATTT
10862522 TTAAAAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.57
16 4 0.17
17 6 0.26
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TAATAATTTATTATTT
Found at i:10865588 original size:30 final size:30
Alignment explanation
Indices: 10865548--10865610 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
10865538 AAAAAATAAT
*
10865548 AATTAGAAATTAAATTTAAAATATAAACGA
1 AATTACAAATTAAATTTAAAATATAAACGA
10865578 AATTACAAATTAAATTTAAAATATAAACGA
1 AATTACAAATTAAATTTAAAATATAAACGA
10865608 AAT
1 AAT
10865611 AAAAATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (30 bp):
AATTACAAATTAAATTTAAAATATAAACGA
Found at i:10865623 original size:30 final size:30
Alignment explanation
Indices: 10865548--10865620 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
10865538 AAAAAATAAT
* *
10865548 AATTAGAAATTAAATTTAAAATATAAACGA
1 AATTAAAAATAAAATTTAAAATATAAACGA
* *
10865578 AATTACAAATTAAATTTAAAATATAAACGA
1 AATTAAAAATAAAATTTAAAATATAAACGA
10865608 AA-TAAAAATAAAA
1 AATTAAAAATAAAA
10865621 ATTGAGTAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 9 0.22
30 31 0.77
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.27
Consensus pattern (30 bp):
AATTAAAAATAAAATTTAAAATATAAACGA
Found at i:10866652 original size:21 final size:21
Alignment explanation
Indices: 10866626--10866680 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
10866616 ATATTTCATT
10866626 TGTAAAAAAATATTTCAG-AAA
1 TGTAAAAAAATATTT-AGAAAA
*
10866647 TGTAAATAAATATTTAGAAAA
1 TGTAAAAAAATATTTAGAAAA
10866668 TGTAAAAAAATAT
1 TGTAAAAAAATAT
10866681 AATATTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (21 bp):
TGTAAAAAAATATTTAGAAAA
Found at i:10866775 original size:14 final size:13
Alignment explanation
Indices: 10866736--10866782 Score: 60
Period size: 12 Copynumber: 3.5 Consensus size: 13
10866726 TTCGAAAATA
*
10866736 TAAAAAATATATG
1 TAAAAAATATATT
10866749 TAAAAAA-ATATT
1 TAAAAAATATATT
10866761 TAAAAAATATAATTT
1 TAAAAAATAT-A-TT
10866776 TAAAAAA
1 TAAAAAA
10866783 AATAAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 11 0.37
13 9 0.30
14 1 0.03
15 9 0.30
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (13 bp):
TAAAAAATATATT
Found at i:10870845 original size:54 final size:55
Alignment explanation
Indices: 10870728--10870886 Score: 135
Period size: 54 Copynumber: 2.9 Consensus size: 55
10870718 AGTTGATGTT
**
10870728 GGCCATGGCATGGGCGACACCCAAAAAAAGTTTTTTTATCTAAAAAAGGGGGTGTC
1 GGCCATGGCATGGGCGACACCC-AAAAAAGTTTTTTTATCTAAAAAAGGAAGTGTC
** * ** * *
10870784 GATCATGGCATGGGCGACACTC-AAAATTTTTTTTTATTTGAAGAAA-GAAGTGTC
1 GGCCATGGCATGGGCGACACCCAAAAAAGTTTTTTTATCT-AAAAAAGGAAGTGTC
* * * * *
10870838 GGCCATGGCAT-GACAGACATCAAAAAAAATAATTTTTATCTAAAAAAGG
1 GGCCATGGCATGGGC-GACACCCAAAAAAGT-TTTTTTATCTAAAAAAGG
10870887 GTGTCGTTCA
Statistics
Matches: 78, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
53 2 0.03
54 33 0.42
55 15 0.19
56 28 0.36
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.26
Consensus pattern (55 bp):
GGCCATGGCATGGGCGACACCCAAAAAAGTTTTTTTATCTAAAAAAGGAAGTGTC
Found at i:10871018 original size:57 final size:56
Alignment explanation
Indices: 10870914--10871152 Score: 180
Period size: 57 Copynumber: 4.2 Consensus size: 56
10870904 ACAGACACTC
* * ** * *
10870914 AAAAT-TTTTTTATCTGATAAA-AGGGGTGTCAATCATGGCTTGGCAAACACCCAAA
1 AAAATATTTTTTATCTGATAAAGA-GGATGCCAGCCATGGCATGACAAACACCCAAA
* *
10870969 AAAATATATTTTTATCTGATAAAGAGGATGCTAGCCATTGCATGACAAACACCCAAA
1 AAAATAT-TTTTTATCTGATAAAGAGGATGCCAGCCATGGCATGACAAACACCCAAA
* ***** * ** *
10871026 AAAATATTTTTTATTCTTATTTTTTGGGTGCCAGTTATGGCTTGACAAACACCCAAA
1 AAAATATTTTTTA-TCTGATAAAGAGGATGCCAGCCATGGCATGACAAACACCCAAA
* * * * * *
10871083 AAAATTTTTTTTATCTGATAAAGA-GAGTGTCGGTCATTGCATCG-TAAACACCCAAA
1 AAAATATTTTTTATCTGATAAAGAGGA-TGCCAGCCATGGCAT-GACAAACACCCAAA
*
10871139 AAATTATTTTTTAT
1 AAAATATTTTTTAT
10871153 TCTTATTTTT
Statistics
Matches: 142, Mismatches: 36, Indels: 11
0.75 0.19 0.06
Matches are distributed among these distances:
55 6 0.04
56 45 0.32
57 90 0.63
58 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (56 bp):
AAAATATTTTTTATCTGATAAAGAGGATGCCAGCCATGGCATGACAAACACCCAAA
Found at i:10871132 original size:113 final size:114
Alignment explanation
Indices: 10870948--10871168 Score: 333
Period size: 113 Copynumber: 1.9 Consensus size: 114
10870938 GGTGTCAATC
*
10870948 ATGGCTTGGCAAACACCCAAAAAAATATATTTTTATCTGATAAAGAGGATGCTAGCCATTGCATG
1 ATGGCTTGACAAACACCCAAAAAAATATATTTTTATCTGATAAAGAGGATGCTAGCCATTGCATG
10871013 ACAAACACCCAAAAAAATATTTTTTATTCTTATTTTTTGGGTGCCAGTT
66 ACAAACACCCAAAAAAATATTTTTTATTCTTATTTTTTGGGTGCCAGTT
* * *
10871062 ATGGCTTGACAAACACCCAAAAAAAT-TTTTTTTATCTGATAAAGA-GAGTG-TCGGTCATTGCA
1 ATGGCTTGACAAACACCCAAAAAAATATATTTTTATCTGATAAAGAGGA-TGCT-AGCCATTGCA
* *
10871124 TCG-TAAACACCCAAAAAATTATTTTTTATTCTTATTTTTTGGGTG
64 T-GACAAACACCCAAAAAAATATTTTTTATTCTTATTTTTTGGGTG
10871169 TCGACTGTGG
Statistics
Matches: 98, Mismatches: 6, Indels: 7
0.88 0.05 0.06
Matches are distributed among these distances:
112 3 0.03
113 69 0.70
114 26 0.27
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (114 bp):
ATGGCTTGACAAACACCCAAAAAAATATATTTTTATCTGATAAAGAGGATGCTAGCCATTGCATG
ACAAACACCCAAAAAAATATTTTTTATTCTTATTTTTTGGGTGCCAGTT
Found at i:10871206 original size:113 final size:113
Alignment explanation
Indices: 10870948--10871208 Score: 305
Period size: 113 Copynumber: 2.3 Consensus size: 113
10870938 GGTGTCAATC
* *
10870948 ATGGCTTGGCAAACACCCAAAAAAATATATTTTTATCTGATAAAGAGGATGCTAGCCATTGCATG
1 ATGGCATGACAAACACCCAAAAAAATAT-TTTTTATCTGATAAAGAGGATGCTAGCCATTGCATG
*
10871013 ACAAACACCCAAAAAAATATTTTTTATTCTTATTTTTTGGGTGCCAGTT
65 ACAAACACCCAAAAAAATATTTTTTATTCTTATTTTTTGGGTGCCAGCT
* * * *
10871062 ATGGCTTGACAAACACCCAAAAAAATTTTTTTTATCTGATAAAGA-GAGTG-TCGGTCATTGCAT
1 ATGGCATGACAAACACCCAAAAAAATATTTTTTATCTGATAAAGAGGA-TGCT-AGCCATTGCAT
* * *
10871125 CG-TAAACACCCAAAAAATTATTTTTTATTCTTATTTTTTGGGTGTC-GACT
64 -GACAAACACCCAAAAAAATATTTTTTATTCTTATTTTTTGGGTGCCAG-CT
* **** *
10871175 GTGGCATGGGTGACACCTAAAAAAATATTTTTTA
1 ATGGCATGACAAACACCCAAAAAAATATTTTTTA
10871209 AATATAAAAA
Statistics
Matches: 127, Mismatches: 16, Indels: 9
0.84 0.11 0.06
Matches are distributed among these distances:
112 4 0.03
113 96 0.76
114 27 0.21
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.35
Consensus pattern (113 bp):
ATGGCATGACAAACACCCAAAAAAATATTTTTTATCTGATAAAGAGGATGCTAGCCATTGCATGA
CAAACACCCAAAAAAATATTTTTTATTCTTATTTTTTGGGTGCCAGCT
Found at i:10871445 original size:61 final size:61
Alignment explanation
Indices: 10871375--10871495 Score: 199
Period size: 61 Copynumber: 2.0 Consensus size: 61
10871365 GACACCAATT
*
10871375 ATTGGGGTGGAATCTGAGGGGTTGTCGGTCATGAGAT-AGACATTTAGCATCTTTACTGTTC
1 ATTGGGGTGGAATCTGAGGGGGTGTCGGTCATGAGATGA-ACATTTAGCATCTTTACTGTTC
* *
10871436 ATTGGGGTGGAATTTGAGGGGGTGTCGGTCATGGGATGAACATTTAGCATCTTTACTGTT
1 ATTGGGGTGGAATCTGAGGGGGTGTCGGTCATGAGATGAACATTTAGCATCTTTACTGTT
10871496 TATTTTAGGT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 55 0.98
62 1 0.02
ACGTcount: A:0.21, C:0.12, G:0.33, T:0.35
Consensus pattern (61 bp):
ATTGGGGTGGAATCTGAGGGGGTGTCGGTCATGAGATGAACATTTAGCATCTTTACTGTTC
Found at i:10872230 original size:24 final size:24
Alignment explanation
Indices: 10872198--10872243 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
10872188 CTATCATTAC
*
10872198 ATTGATTCAGAATATTAACGAGTT
1 ATTGATTCAGAATAATAACGAGTT
*
10872222 ATTGATTCAGATTAATAACGAG
1 ATTGATTCAGAATAATAACGAG
10872244 CTAATGAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (24 bp):
ATTGATTCAGAATAATAACGAGTT
Found at i:10875503 original size:24 final size:24
Alignment explanation
Indices: 10875458--10875503 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
10875448 GTGAGATAGC
* *
10875458 AAAAATAAATAATTATATAAATTG
1 AAAAATAAATAATAAGATAAATTG
10875482 AAAAATAAAATAATAAGA-AAAT
1 AAAAAT-AAATAATAAGATAAAT
10875504 AAATTTGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (24 bp):
AAAAATAAATAATAAGATAAATTG
Found at i:10878845 original size:13 final size:13
Alignment explanation
Indices: 10878823--10878884 Score: 70
Period size: 13 Copynumber: 4.8 Consensus size: 13
10878813 GATGATATGC
*
10878823 TTATACGAAATGG
1 TTATATGAAATGG
*
10878836 TTATATGAAATGA
1 TTATATGAAATGG
* *
10878849 TTACATAAAATGG
1 TTATATGAAATGG
*
10878862 TTATATGAATTGG
1 TTATATGAAATGG
*
10878875 TTACATGAAA
1 TTATATGAAA
10878885 ATAGATGTAT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.35
Consensus pattern (13 bp):
TTATATGAAATGG
Found at i:10878859 original size:26 final size:27
Alignment explanation
Indices: 10878830--10878886 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
10878820 TGCTTATACG
10878830 AAATGGTTATATGAAATGATTACAT-A
1 AAATGGTTATATGAAATGATTACATGA
* *
10878856 AAATGGTTATATGAATTGGTTACATGA
1 AAATGGTTATATGAAATGATTACATGA
10878883 AAAT
1 AAAT
10878887 AGATGTATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 23 0.82
27 5 0.18
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.35
Consensus pattern (27 bp):
AAATGGTTATATGAAATGATTACATGA
Found at i:10878895 original size:27 final size:26
Alignment explanation
Indices: 10878837--10878901 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
10878827 ACGAAATGGT
* * *
10878837 TATATGAAATGATTACATAAAATGGT
1 TATATGAATTGATTACATAAAATAGA
*
10878863 TATATGAATTGGTTACATGAAAATAGA
1 TATATGAATTGATTACAT-AAAATAGA
*
10878890 TGTATGAATTGA
1 TATATGAATTGA
10878902 GACATTGGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 16 0.50
27 16 0.50
ACGTcount: A:0.43, C:0.03, G:0.18, T:0.35
Consensus pattern (26 bp):
TATATGAATTGATTACATAAAATAGA
Found at i:10898519 original size:20 final size:21
Alignment explanation
Indices: 10898496--10898535 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
10898486 TTAGTGCAAG
*
10898496 CATTTTGACATG-TTTAAAAT
1 CATTTTAACATGATTTAAAAT
*
10898516 CATTTTAACTTGATTTAAAA
1 CATTTTAACATGATTTAAAA
10898536 ATTGTTTCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (21 bp):
CATTTTAACATGATTTAAAAT
Found at i:10907385 original size:17 final size:17
Alignment explanation
Indices: 10907363--10907415 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
10907353 AACATGAAAA
10907363 AAAATAAATGAATATTT
1 AAAATAAATGAATATTT
10907380 AAAAT-AA--AATATTT
1 AAAATAAATGAATATTT
10907394 AAGAA-AAATGAATATTTT
1 AA-AATAAATGAATA-TTT
10907412 AAAA
1 AAAA
10907416 ATTTTAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
14 9 0.29
15 4 0.13
16 2 0.06
17 11 0.35
18 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (17 bp):
AAAATAAATGAATATTT
Found at i:10908175 original size:17 final size:17
Alignment explanation
Indices: 10908145--10908178 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10908135 ATTTTGATAC
**
10908145 TTTAAATTTTTAAAATT
1 TTTAAATTAATAAAATT
10908162 TTTAAATTAATAAAATT
1 TTTAAATTAATAAAATT
10908179 AAAATTATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAAATTAATAAAATT
Found at i:10909643 original size:20 final size:20
Alignment explanation
Indices: 10909605--10909643 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10909595 ATATTTAACT
**
10909605 ATATTTAAATAAATTTTTTA
1 ATATTTAAATAAAAGTTTTA
*
10909625 ATATTTACATAAAAGTTTT
1 ATATTTAAATAAAAGTTTT
10909644 GATCTATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (20 bp):
ATATTTAAATAAAAGTTTTA
Found at i:10910938 original size:17 final size:17
Alignment explanation
Indices: 10910916--10910957 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
10910906 ATGAACCTAA
10910916 AATCTTAAAATACTCAT
1 AATCTTAAAATACTCAT
10910933 AATCTTAAAATACTCAT
1 AATCTTAAAATACTCAT
10910950 AATCTTAA
1 AATCTTAA
10910958 CTTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.36
Consensus pattern (17 bp):
AATCTTAAAATACTCAT
Found at i:10914127 original size:21 final size:21
Alignment explanation
Indices: 10914092--10914136 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 21
10914082 AATTTAAACT
10914092 AAAAATGTATCAAACTTAATATA
1 AAAAATGTATCAAAC-T-ATATA
10914115 AAAAAT-TAT-AAACTATATA
1 AAAAATGTATCAAACTATATA
10914134 AAA
1 AAA
10914137 GAAATTAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.36
20 1 0.05
21 4 0.18
22 3 0.14
23 6 0.27
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAATGTATCAAACTATATA
Found at i:10923958 original size:14 final size:14
Alignment explanation
Indices: 10923941--10923988 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
10923931 ATCAACTCAA
10923941 TTCAATTAACTATT
1 TTCAATTAACTATT
* *
10923955 TTCAAATCAACTCA-A
1 TTC-AATTAACT-ATT
10923970 TTCAATTAACTATT
1 TTCAATTAACTATT
10923984 TTCAA
1 TTCAA
10923989 CTTACTCAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
13 1 0.04
14 15 0.56
15 10 0.37
16 1 0.04
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (14 bp):
TTCAATTAACTATT
Found at i:10923973 original size:29 final size:29
Alignment explanation
Indices: 10923931--10923988 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
10923921 TCCAAATCAT
10923931 ATCAACTCAATTCAATTAACTATTTTCAA
1 ATCAACTCAATTCAATTAACTATTTTCAA
10923960 ATCAACTCAATTCAATTAACTATTTTCAA
1 ATCAACTCAATTCAATTAACTATTTTCAA
10923989 CTTACTCAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (29 bp):
ATCAACTCAATTCAATTAACTATTTTCAA
Found at i:10927412 original size:16 final size:16
Alignment explanation
Indices: 10927391--10927421 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10927381 AGCCCATACC
*
10927391 CTGAAATGATCCAAAT
1 CTGAAATGACCCAAAT
10927407 CTGAAATGACCCAAA
1 CTGAAATGACCCAAA
10927422 CTTAAAATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.23, G:0.13, T:0.19
Consensus pattern (16 bp):
CTGAAATGACCCAAAT
Found at i:10930435 original size:14 final size:13
Alignment explanation
Indices: 10930401--10930462 Score: 70
Period size: 13 Copynumber: 4.8 Consensus size: 13
10930391 TAAACCAAGT
10930401 TTTTCAAAAGTAC
1 TTTTCAAAAGTAC
*
10930414 TTTTCAAAATTAC
1 TTTTCAAAAGTAC
* * *
10930427 TTTTCCAAAGCAT
1 TTTTCAAAAGTAC
*
10930440 TTTTTAAAAGTAC
1 TTTTCAAAAGTAC
*
10930453 TTCTCAAAAG
1 TTTTCAAAAG
10930463 CAATGCTAAA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.40
Consensus pattern (13 bp):
TTTTCAAAAGTAC
Found at i:10936122 original size:116 final size:116
Alignment explanation
Indices: 10935918--10936146 Score: 379
Period size: 116 Copynumber: 2.0 Consensus size: 116
10935908 AACCCATGCA
* * *
10935918 TGTATCGGTAGAAGTATAGGGTAGGAGAGAGGTTGTTCACTGACTTGGGTTGTATCGATAGTTGA
1 TGTATCGGTAGAAGTACAAGGTAGGAGAGAGGTTGTTCACTGACTTGAGTTGTATCGATAGTTGA
* *
10935983 ATAGCAAGTATCGGTAGCCATGTGTTTAGAAGTACC-GATAGTTTGTATACT
66 ATAGCAAATATCGGTAGCCATGTGATTAGAAGTACCAG-TAGTTTGTATACT
*
10936034 TGTATCGGTAGAAGTACAAGGTAGGAGAGAGGTTGTTCACTGACTTGAGTTGTATCGGTAGTTGA
1 TGTATCGGTAGAAGTACAAGGTAGGAGAGAGGTTGTTCACTGACTTGAGTTGTATCGATAGTTGA
*
10936099 ATAGCAAATATCGGTAGCCATGTGATTAGAAGTATCAGTAGTTTGTAT
66 ATAGCAAATATCGGTAGCCATGTGATTAGAAGTACCAGTAGTTTGTAT
10936147 CAGTAGAAGT
Statistics
Matches: 105, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
116 104 0.99
117 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.30, T:0.32
Consensus pattern (116 bp):
TGTATCGGTAGAAGTACAAGGTAGGAGAGAGGTTGTTCACTGACTTGAGTTGTATCGATAGTTGA
ATAGCAAATATCGGTAGCCATGTGATTAGAAGTACCAGTAGTTTGTATACT
Found at i:10936218 original size:21 final size:21
Alignment explanation
Indices: 10936192--10936268 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
10936182 GGAGTTTTTA
*
10936192 GTATCGGTAGAAGTAAGACTT
1 GTATCGATAGAAGTAAGACTT
10936213 GTATCGATAGAAG--AGTCACTT
1 GTATCGATAGAAGTAAG--ACTT
* * * **
10936234 GTATCGGTAAAACTATCACTT
1 GTATCGATAGAAGTAAGACTT
10936255 GTATCGATAGAAGT
1 GTATCGATAGAAGT
10936269 CTGCACTATT
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
19 2 0.05
21 41 0.95
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (21 bp):
GTATCGATAGAAGTAAGACTT
Found at i:10936711 original size:16 final size:18
Alignment explanation
Indices: 10936683--10936720 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
10936673 ACATCTCAAA
10936683 TCAA-TAAATTAA-TTTC
1 TCAATTAAATTAATTTTC
10936699 TCAATTAAA-TAATTTTC
1 TCAATTAAATTAATTTTC
10936716 TCAAT
1 TCAAT
10936721 CTTATTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (18 bp):
TCAATTAAATTAATTTTC
Found at i:10942392 original size:6 final size:6
Alignment explanation
Indices: 10942377--10942436 Score: 54
Period size: 6 Copynumber: 10.3 Consensus size: 6
10942367 AAACCCAATC
* * *
10942377 TTTAAT TTTAAA TTT-AT TTTAAG TTTAAA TTTAAA TTT--A TTCTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA
*
10942423 TTTAAT TTTAAA TT
1 TTTAAA TTTAAA TT
10942437 GAGCTTAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
4 3 0.07
5 5 0.11
6 33 0.75
7 3 0.07
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (6 bp):
TTTAAA
Found at i:10942403 original size:17 final size:17
Alignment explanation
Indices: 10942377--10942409 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10942367 AAACCCAATC
*
10942377 TTTAATTTTAAATTTAT
1 TTTAAGTTTAAATTTAT
10942394 TTTAAGTTTAAATTTA
1 TTTAAGTTTAAATTTA
10942410 AATTTATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTAAGTTTAAATTTAT
Found at i:10942403 original size:23 final size:23
Alignment explanation
Indices: 10942377--10942436 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
10942367 AAACCCAATC
* *
10942377 TTTAATTTTAAATTTATTTTAAG
1 TTTAATTTTAAATTTATTCTAAA
*
10942400 TTTAAATTTAAATTTATTCTAAA
1 TTTAATTTTAAATTTATTCTAAA
10942423 TTTAATTTTAAATT
1 TTTAATTTTAAATT
10942437 GAGCTTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTAATTTTAAATTTATTCTAAA
Found at i:10943016 original size:15 final size:15
Alignment explanation
Indices: 10942980--10943033 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
10942970 CGTTTTTAAA
10942980 TATATATTAATATAT
1 TATATATTAATATAT
* *
10942995 T-TAATATTTATTTAT
1 TAT-ATATTAATATAT
10943010 TATATATTAATATAGT
1 TATATATTAATATA-T
10943026 TAT-TATTA
1 TATATATTA
10943034 CTGTTATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
14 1 0.03
15 26 0.81
16 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
TATATATTAATATAT
Found at i:10944064 original size:29 final size:29
Alignment explanation
Indices: 10943972--10944295 Score: 179
Period size: 28 Copynumber: 11.2 Consensus size: 29
10943962 TAGAAATCAT
* * *
10943972 ATTTTGACCCCTAAACTTTTCC-AAAATTTC
1 ATTTTTACCCCCAAAC--TTCCAAAAATTAC
* * * *
10944002 ATTTTCACCCCTAAGCTTCTCACAAATTAC
1 ATTTTTACCCCCAAACTTC-CAAAAATTAC
* *
10944032 ATTTTTACCCCCGAACTTCAAAAAATTAC
1 ATTTTTACCCCCAAACTTCCAAAAATTAC
* * *
10944061 A-TTTTGCCCTCGAACTTCTCAAAAATTAC
1 ATTTTTACCCCCAAACTTC-CAAAAATTAC
*
10944090 A-TTTT-GCCCCAAACTTCTCAAAAATTAC
1 ATTTTTACCCCCAAACTTC-CAAAAATTAC
* *
10944118 ATTTTTACCCCTAAACTTTCAAAAATTAC
1 ATTTTTACCCCCAAACTTCCAAAAATTAC
**
10944147 ATTTTTACCCTTGAAA-TTCCAAAAA-T-C
1 ATTTTTACCC-CCAAACTTCCAAAAATTAC
* *
10944174 ATGTTTTACCCCTAAACTTCTAAAAA-T-C
1 AT-TTTTACCCCCAAACTTCCAAAAATTAC
* * ** *
10944202 ATGTTTTACCTCGAATTTTTCC-AAAATGAC
1 AT-TTTTACCCCCAA-ACTTCCAAAAATTAC
** *
10944232 ATTTTTACCTCTAAAACTTTCC-AAAATTGC
1 ATTTTTACC-CCCAAAC-TTCCAAAAATTAC
* * *
10944262 A-TTTTAACCCCAAACTCTCTAAAACTT-C
1 ATTTTTACCCCCAAACT-TCCAAAAATTAC
10944290 ATTTTT
1 ATTTTT
10944296 GACCTCGTTT
Statistics
Matches: 235, Mismatches: 43, Indels: 33
0.76 0.14 0.11
Matches are distributed among these distances:
27 7 0.03
28 84 0.36
29 81 0.34
30 63 0.27
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.37
Consensus pattern (29 bp):
ATTTTTACCCCCAAACTTCCAAAAATTAC
Found at i:10944157 original size:28 final size:28
Alignment explanation
Indices: 10943980--10944295 Score: 184
Period size: 29 Copynumber: 11.0 Consensus size: 28
10943970 ATATTTTGAC
* * *
10943980 CCCTAAACTTTTCCAAAATTTCATTTTCA
1 CCCTAAAC-TTTCAAAAATTACATTTTTA
* *
10944009 CCCCTAAGCTTCTCACAAATTACATTTTTA
1 -CCCTAAACTT-TCAAAAATTACATTTTTA
** *
10944039 CCCCCGAAC-TTCAAAAAATTACA-TTTTG
1 -CCCTAAACTTTC-AAAAATTACATTTTTA
* *
10944067 CCCTCGAACTTCTCAAAAATTACA-TTTTG
1 CCCT-AAACTT-TCAAAAATTACATTTTTA
*
10944096 CCCCAAACTTCTCAAAAATTACATTTTTA
1 CCCTAAACTT-TCAAAAATTACATTTTTA
10944125 CCCCTAAACTTTCAAAAATTACATTTTTA
1 -CCCTAAACTTTCAAAAATTACATTTTTA
*
10944154 CCCTTGAAA-TTCCAAAAA-T-CATGTTTTA
1 CCC-T-AAACTTTCAAAAATTACAT-TTTTA
10944182 CCCCTAAAC-TTCTAAAAA-T-CATGTTTTA
1 -CCCTAAACTTTC-AAAAATTACAT-TTTTA
* ** * *
10944210 CCTCGAATTTTTCCAAAATGACATTTTTA
1 CC-CTAAACTTTCAAAAATTACATTTTTA
* * *
10944239 CCTCTAAAACTTTCCAAAATTGCATTTTAA
1 CC-CT-AAACTTTCAAAAATTACATTTTTA
* * *
10944269 CCCCAAACTCTCTAAAACTT-CATTTTT
1 CCCTAAACTTTC-AAAAATTACATTTTT
10944296 GACCTCGTTT
Statistics
Matches: 234, Mismatches: 33, Indels: 40
0.76 0.11 0.13
Matches are distributed among these distances:
27 13 0.06
28 73 0.31
29 83 0.35
30 65 0.28
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.36
Consensus pattern (28 bp):
CCCTAAACTTTCAAAAATTACATTTTTA
Found at i:10944393 original size:15 final size:14
Alignment explanation
Indices: 10944366--10944410 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
10944356 TAATTTTGTA
*
10944366 TTTTCTCATTTATT
1 TTTTCTTATTTATT
10944380 TTTTCTTATCTTATT
1 TTTTCTTAT-TTATT
* *
10944395 TTCTCATATTTATT
1 TTTTCTTATTTATT
10944409 TT
1 TT
10944411 CGTATATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTTATTTATT
Found at i:10944419 original size:14 final size:14
Alignment explanation
Indices: 10944364--10944411 Score: 55
Period size: 15 Copynumber: 3.5 Consensus size: 14
10944354 ATTAATTTTG
10944364 TATTTTCTC--ATT
1 TATTTTCTCATATT
* *
10944376 TATTTTTTCTTATCT
1 TATTTTCTCATAT-T
10944391 TATTTTCTCATATT
1 TATTTTCTCATATT
10944405 TATTTTC
1 TATTTTC
10944412 GTATATTTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 8 0.27
14 10 0.33
15 12 0.40
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.69
Consensus pattern (14 bp):
TATTTTCTCATATT
Found at i:10944706 original size:97 final size:97
Alignment explanation
Indices: 10944546--10944827 Score: 438
Period size: 97 Copynumber: 2.9 Consensus size: 97
10944536 ATTTAAATTA
* * * * *
10944546 AGGCAATATTCCTTTATTTCGAGTTTTGAAAATTCGTGCCTTAATTTACTAGGCACGATTTTTCT
1 AGGCAATATTCCTTTATTTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGACTTTTCT
*
10944611 TTAAACCGGGATAATCGAATACCCTTAAATCG
66 TCAAACCGGGATAATCGAATACCCTTAAATCG
* *
10944643 AGGCAATATTCCTTTATTTCGGGTTTTAAAAATTTGTGTCTTAACTTACTAGGCGCGACTTTTCT
1 AGGCAATATTCCTTTATTTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGACTTTTCT
* ** *
10944708 TCAAACTGGGATAATCGAATACTTTTAAATTG
66 TCAAACCGGGATAATCGAATACCCTTAAATCG
* *
10944740 AGGCAGTATTCCTTTATTTCGGGTTCTGAAAATTTGTGCCTTAACTTACTAGGCGCGACTTTTCT
1 AGGCAATATTCCTTTATTTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGACTTTTCT
10944805 TCAAACCGGGATAATCGAATACC
66 TCAAACCGGGATAATCGAATACC
10944828 TTTTTCAAGG
Statistics
Matches: 167, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
97 167 1.00
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.37
Consensus pattern (97 bp):
AGGCAATATTCCTTTATTTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGACTTTTCT
TCAAACCGGGATAATCGAATACCCTTAAATCG
Found at i:10956160 original size:6 final size:6
Alignment explanation
Indices: 10956154--10956191 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
10956144 CCAACTCCTG
* *
10956154 CTTCTG CTTCTG CTTCTC CTTCTC CTTCTC CTTCTC CT
1 CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CTTCTC CT
10956192 CCACCCTTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.45, G:0.05, T:0.50
Consensus pattern (6 bp):
CTTCTC
Found at i:10956593 original size:6 final size:6
Alignment explanation
Indices: 10956579--10956612 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
10956569 ATTTCCACTG
*
10956579 CCTCCA CCTCTA CCTCTA CCTCTA CCTCTA CCTC
1 CCTCTA CCTCTA CCTCTA CCTCTA CCTCTA CCTC
10956613 CACCAACATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.56, G:0.00, T:0.29
Consensus pattern (6 bp):
CCTCTA
Found at i:10958757 original size:20 final size:18
Alignment explanation
Indices: 10958730--10958773 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
10958720 TTTTTAGTTA
*
10958730 TTTTTATATATTTATATAT
1 TTTTTATAAATTTATA-AT
10958749 TTGTTTATAAATTTATAAT
1 TT-TTTATAAATTTATAAT
10958768 TTTTTA
1 TTTTTA
10958774 GTTCTTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 6 0.26
20 13 0.57
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTTTATAAATTTATAAT
Found at i:10958800 original size:27 final size:26
Alignment explanation
Indices: 10958732--10958800 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 26
10958722 TTTAGTTATT
* *
10958732 TTTATATATTTATATATTTGTTTATAAA
1 TTTATATATTT-T-TAGTTCTTTATAAA
*
10958760 TTTATA-ATTTTTTAGTTCTTTAATATA
1 TTTATATA-TTTTTAGTTCTTT-ATAAA
10958787 TTTATATATTTTTA
1 TTTATATATTTTTA
10958801 TAAATTTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
26 7 0.20
27 18 0.51
28 10 0.29
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (26 bp):
TTTATATATTTTTAGTTCTTTATAAA
Found at i:10963032 original size:36 final size:36
Alignment explanation
Indices: 10962945--10963021 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
10962935 GTCATGTTGG
* *
10962945 TCACACGATCGTGTGGAATGGTTTAGCCCGTGTGGA
1 TCACACGATCGTGTGGAATGGTTTAGCCCATATGGA
* *
10962981 TCACACGATCATGTGGAATGGTTTAGCTCATATGGA
1 TCACACGATCGTGTGGAATGGTTTAGCCCATATGGA
10963017 TCACA
1 TCACA
10963022 TGACTGTGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (36 bp):
TCACACGATCGTGTGGAATGGTTTAGCCCATATGGA
Found at i:10968058 original size:29 final size:29
Alignment explanation
Indices: 10968018--10968075 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
10968008 GATGAACCAT
*
10968018 AATTAAATAAATAATCAAAAATTCATAAA
1 AATTAAATAAATAATAAAAAATTCATAAA
* *
10968047 AATTAAGA-AAATATTAAAAAATTTATAAA
1 AATTAA-ATAAATAATAAAAAATTCATAAA
10968076 TCAATTCAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (29 bp):
AATTAAATAAATAATAAAAAATTCATAAA
Found at i:10969275 original size:96 final size:95
Alignment explanation
Indices: 10969095--10969285 Score: 226
Period size: 96 Copynumber: 2.0 Consensus size: 95
10969085 AATTTTGAAG
* * * * * *
10969095 AAGGATATTGATTATCTCGATTTGAAGAAATATTACACCTAGTGAGTTAAGGCACAAATTTTCAT
1 AAGGATATTGATTATCTCGATTTGAAAAAAAATTACACCTAGTAAATTAAGACACAAAATTTCAT
*
10969160 AACCGAAGATAAGGAAATATTGCCTCGATT
66 AACCGAAGATAAAGAAATATTGCCTCGATT
* * * *
10969190 AAGGGTATTCGATTATTTCGATTTGAAAAAAAATTGCACCTAGTAAATTAAGACGCAAAATTTCG
1 AAGGATATT-GATTATCTCGATTTGAAAAAAAATTACACCTAGTAAATTAAGACACAAAATTTC-
10969255 A-AACTCGAA-ATAAA-AGAATATTGCCTCGATT
64 ATAAC-CGAAGATAAAGA-AATATTGCCTCGATT
10969286 TTAAAGTTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
95 9 0.11
96 67 0.83
97 5 0.06
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.30
Consensus pattern (95 bp):
AAGGATATTGATTATCTCGATTTGAAAAAAAATTACACCTAGTAAATTAAGACACAAAATTTCAT
AACCGAAGATAAAGAAATATTGCCTCGATT
Found at i:10969690 original size:30 final size:30
Alignment explanation
Indices: 10969595--10969805 Score: 147
Period size: 29 Copynumber: 7.1 Consensus size: 30
10969585 GATTGAGGGT
* * *
10969595 AAAATGGTAATTTTTAGAAAGATCGAGATCA
1 AAAATGGTAATTTTT-GAAAGTTCGGGGTCA
* * * *
10969626 AAAACAGG--ATTTTTGGATATTTGGGGGT--
1 AAAA-TGGTAATTTTT-GAAAGTTCGGGGTCA
* *
10969654 AAAATGGTAA-TTTCGAAAGTTTTGGGGTCA
1 AAAATGGTAATTTTTGAAAG-TTCGGGGTCA
*
10969684 AAAATGG-AATTTTTGGAAGTTCGGGAG-CA
1 AAAATGGTAATTTTTGAAAGTTCGGG-GTCA
10969713 AAAATGG-AATTTTTGAAAGTTCGAGGGT-A
1 AAAATGGTAATTTTTGAAAGTTCG-GGGTCA
*
10969742 AAAAT-GTAATTTTTGAAAGTTTTGGGGTCA
1 AAAATGGTAATTTTTGAAAG-TTCGGGGTCA
* *
10969772 AAAAT-GTAATTTTGGGGAAGTTCGGGGGTCA
1 AAAATGGTAATTTT-TGAAAGTTC-GGGGTCA
10969803 AAA
1 AAA
10969806 TACAATTTTT
Statistics
Matches: 144, Mismatches: 21, Indels: 30
0.74 0.11 0.15
Matches are distributed among these distances:
27 5 0.03
28 15 0.10
29 55 0.38
30 49 0.34
31 18 0.12
32 2 0.01
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (30 bp):
AAAATGGTAATTTTTGAAAGTTCGGGGTCA
Found at i:10969717 original size:59 final size:59
Alignment explanation
Indices: 10969654--10969783 Score: 144
Period size: 59 Copynumber: 2.2 Consensus size: 59
10969644 ATTTGGGGGT
* *
10969654 AAAATGGTAATTTCGAAAGTTTTG-GGGTCAAAAATGGAATTTTTGGAAG-TTCGGGAG-CA
1 AAAATGGTAATTTCGAAAG-TTCGAGGGT-AAAAATGGAATTTTTGAAAGTTTCGGG-GTCA
* * *
10969713 AAAATGG-AATTTTTGAAAGTTCGAGGGTAAAAATGTAATTTTTGAAAGTTTTGGGGTCA
1 AAAATGGTAA-TTTCGAAAGTTCGAGGGTAAAAATGGAATTTTTGAAAGTTTCGGGGTCA
10969772 AAAAT-GTAATTT
1 AAAATGGTAATTT
10969784 TGGGGAAGTT
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
58 28 0.46
59 33 0.54
ACGTcount: A:0.36, C:0.05, G:0.25, T:0.34
Consensus pattern (59 bp):
AAAATGGTAATTTCGAAAGTTCGAGGGTAAAAATGGAATTTTTGAAAGTTTCGGGGTCA
Found at i:10969806 original size:30 final size:30
Alignment explanation
Indices: 10969654--10969805 Score: 157
Period size: 29 Copynumber: 5.1 Consensus size: 30
10969644 ATTTGGGGGT
* **
10969654 AAAATGGTAA-TTTCGAAAGTTTTGGGGTCA
1 AAAATGG-AATTTTTGAAAGTTCGGGGGTCA
* *
10969684 AAAATGGAATTTTTGGAAGTTCGGGAG-CA
1 AAAATGGAATTTTTGAAAGTTCGGGGGTCA
*
10969713 AAAATGGAATTTTTGAAAGTTCGAGGGT-A
1 AAAATGGAATTTTTGAAAGTTCGGGGGTCA
* **
10969742 AAAATGTAATTTTTGAAAGTTTTGGGGTCA
1 AAAATGGAATTTTTGAAAGTTCGGGGGTCA
* * *
10969772 AAAATGTAATTTTGGGGAAGTTCGGGGGTCA
1 AAAATGGAATTTT-TGAAAGTTCGGGGGTCA
10969803 AAA
1 AAA
10969806 TACAATTTTT
Statistics
Matches: 102, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
29 53 0.52
30 33 0.32
31 16 0.16
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (30 bp):
AAAATGGAATTTTTGAAAGTTCGGGGGTCA
Found at i:10971847 original size:17 final size:16
Alignment explanation
Indices: 10971791--10971845 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
10971781 TTAAAACCAT
*
10971791 TTTAAATTTAATTAAA
1 TTTAAATTTAAATAAA
* *
10971807 TTTAAATTCAAAACAAA
1 TTTAAATT-TAAATAAA
10971824 TTTAAATTTAAATAAA
1 TTTAAATTTAAATAAA
10971840 TTTAAA
1 TTTAAA
10971846 ATCAGTTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 20 0.61
17 13 0.39
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:10972316 original size:10 final size:11
Alignment explanation
Indices: 10972295--10972332 Score: 60
Period size: 10 Copynumber: 3.5 Consensus size: 11
10972285 TTTCGACCCA
10972295 TTTTTCTTCTTT
1 TTTTTC-TCTTT
10972307 TTTTTC-CTTT
1 TTTTTCTCTTT
10972317 TTTTTCTCTTT
1 TTTTTCTCTTT
10972328 TTTTT
1 TTTTT
10972333 TTCTATCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.40
11 9 0.36
12 6 0.24
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTCTCTTT
Found at i:10976806 original size:96 final size:96
Alignment explanation
Indices: 10976636--10976816 Score: 231
Period size: 96 Copynumber: 1.9 Consensus size: 96
10976626 AAGGATATTA
* * * * * *
10976636 ATTATCTCGATTTGAAGAAATATTGCACCAAGTGAGTTAAGGCACAAATTTTCATAACCGAAGAT
1 ATTATCTCGATTTGAAGAAAAATTGCACCAAGTAAATTAAAGCACAAAATTTCAAAACCGAAGAT
*
10976701 AAGGAAATATTACCTCGATTAAGGGTATTCG
66 AAAGAAATATTACCTCGATTAAGGGTATTCG
* * *
10976732 ATTATTTCGATTTGAAGAAAAATTGCACCTAGTAAATTAAAGCGCAAAATTTCAAAACTCGAA-A
1 ATTATCTCGATTTGAAGAAAAATTGCACCAAGTAAATTAAAGCACAAAATTTCAAAAC-CGAAGA
*
10976796 TAAA-AGAATATTGCCTCGATT
65 TAAAGA-AATATTACCTCGATT
10976817 TTAAATTTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
95 1 0.01
96 67 0.93
97 4 0.06
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.29
Consensus pattern (96 bp):
ATTATCTCGATTTGAAGAAAAATTGCACCAAGTAAATTAAAGCACAAAATTTCAAAACCGAAGAT
AAAGAAATATTACCTCGATTAAGGGTATTCG
Found at i:10977063 original size:28 final size:28
Alignment explanation
Indices: 10977023--10977084 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
10977013 AAATAAGACT
*
10977023 TTTTGGATACTCGGGGGCAAAATGGTAA
1 TTTTGGATACTCGAGGGCAAAATGGTAA
*
10977051 TTTTGGACT-CTCGAGGGTAAAATGGTAA
1 TTTTGGA-TACTCGAGGGCAAAATGGTAA
10977079 TTTTGG
1 TTTTGG
10977085 GAAAATTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 30 0.97
29 1 0.03
ACGTcount: A:0.26, C:0.10, G:0.31, T:0.34
Consensus pattern (28 bp):
TTTTGGATACTCGAGGGCAAAATGGTAA
Found at i:10977236 original size:30 final size:30
Alignment explanation
Indices: 10977202--10977354 Score: 122
Period size: 30 Copynumber: 5.2 Consensus size: 30
10977192 GTAATTTCGA
*
10977202 AAGTTTCGGGGTTAAAAATGGAATTTTTGG
1 AAGTTTCGGGGTCAAAAATGGAATTTTTGG
* *
10977232 AAG-TTCAGGAG-CAAAAATGGAATTTTTGA
1 AAGTTTC-GGGGTCAAAAATGGAATTTTTGG
* * * *
10977261 AAG-TACGGGG--GAAAATGTAATTTTTAG
1 AAGTTTCGGGGTCAAAAATGGAATTTTTGG
** *
10977288 AAGTTTTAGGGTCAAAAATGGAATTTTGAGG
1 AAGTTTCGGGGTCAAAAATGGAATTTT-TGG
*
10977319 AAGTTTGGGGGTCAAAATAT--AATTTTTGG
1 AAGTTTCGGGGTCAAAA-ATGGAATTTTTGG
10977348 ACAGTTT
1 A-AGTTT
10977355 AGGGACCTTT
Statistics
Matches: 97, Mismatches: 19, Indels: 14
0.75 0.15 0.11
Matches are distributed among these distances:
27 16 0.16
28 7 0.07
29 27 0.28
30 29 0.30
31 16 0.16
32 2 0.02
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (30 bp):
AAGTTTCGGGGTCAAAAATGGAATTTTTGG
Found at i:10977247 original size:29 final size:28
Alignment explanation
Indices: 10977215--10977323 Score: 103
Period size: 29 Copynumber: 3.8 Consensus size: 28
10977205 TTTCGGGGTT
10977215 AAAAATGGAATTTTTGGAAGTTCAGGAGC
1 AAAAATGGAATTTTTGGAAGTTCAGG-GC
* * *
10977244 AAAAATGGAATTTTTGAAAGTAC-GGGG
1 AAAAATGGAATTTTTGGAAGTTCAGGGC
* * * *
10977271 GAAAATGTAATTTTTAGAAGTTTTAGGGTC
1 AAAAATGGAATTTTTGGAAG-TTCAGGG-C
*
10977301 AAAAATGGAATTTTGAGGAAGTT
1 AAAAATGGAATTTT-TGGAAGTT
10977324 TGGGGGTCAA
Statistics
Matches: 62, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
27 17 0.27
28 3 0.05
29 24 0.39
30 14 0.23
31 4 0.06
ACGTcount: A:0.39, C:0.04, G:0.27, T:0.31
Consensus pattern (28 bp):
AAAAATGGAATTTTTGGAAGTTCAGGGC
Found at i:10977346 original size:31 final size:30
Alignment explanation
Indices: 10977272--10977358 Score: 76
Period size: 31 Copynumber: 2.9 Consensus size: 30
10977262 AGTACGGGGG
* *
10977272 AAAATGTAATTTTT-AGAAGTTTTAGGGTC
1 AAAATATAATTTTTGAGAAGTTTGAGGGTC
*
10977301 AAAA-ATGGAA-TTTTGAGGAAGTTTGGGGGTC
1 AAAATAT--AATTTTTGA-GAAGTTTGAGGGTC
10977332 AAAATATAATTTTTG-GACAGTTT-AGGG
1 AAAATATAATTTTTGAGA-AGTTTGAGGG
10977359 ACCTTTAGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
28 1 0.02
29 13 0.28
30 10 0.21
31 21 0.45
32 2 0.04
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.36
Consensus pattern (30 bp):
AAAATATAATTTTTGAGAAGTTTGAGGGTC
Found at i:10979371 original size:17 final size:16
Alignment explanation
Indices: 10979315--10979369 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
10979305 TTAAAACCAT
*
10979315 TTTAAATTTAATTAAA
1 TTTAAATTTAAATAAA
* *
10979331 TTTAAATTCAAAACAAA
1 TTTAAATT-TAAATAAA
10979348 TTTAAATTTAAATAAA
1 TTTAAATTTAAATAAA
10979364 TTTAAA
1 TTTAAA
10979370 ATCAGTTCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
16 20 0.61
17 13 0.39
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:10984043 original size:18 final size:17
Alignment explanation
Indices: 10983989--10984048 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 17
10983979 TATATGTATG
10983989 TTTTATCAATTTTATAATT
1 TTTTAT-AATTTTAT-ATT
* *
10984008 TATTAGAATTTTTATATT
1 TTTTATAA-TTTTATATT
10984026 TTTTATAATATTTATATT
1 TTTTATAAT-TTTATATT
10984044 TTTTA
1 TTTTA
10984049 AAAAATATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 1 0.03
18 24 0.69
19 10 0.29
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTTATAATTTTATATT
Found at i:10996372 original size:17 final size:17
Alignment explanation
Indices: 10996350--10996393 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
10996340 TTTACTGAAC
10996350 CAACATCAATTCTGCAT
1 CAACATCAATTCTGCAT
10996367 CAACATCAATTCTGCAT
1 CAACATCAATTCTGCAT
10996384 CAACATCAAT
1 CAACATCAAT
10996394 CTTGAATCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.39, C:0.30, G:0.05, T:0.27
Consensus pattern (17 bp):
CAACATCAATTCTGCAT
Found at i:11003506 original size:12 final size:12
Alignment explanation
Indices: 11003489--11003528 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
11003479 TCCTCGATCG
11003489 TGACCACGACCA
1 TGACCACGACCA
*
11003501 TGACCACGGCCA
1 TGACCACGACCA
* *
11003513 TGTCCTCGACCA
1 TGACCACGACCA
11003525 TGAC
1 TGAC
11003529 TACTAGTGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.20, T:0.15
Consensus pattern (12 bp):
TGACCACGACCA
Found at i:11008916 original size:6 final size:6
Alignment explanation
Indices: 11008905--11008932 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
11008895 ATTTAATGAT
11008905 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTT
11008933 TTTAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTAA
Found at i:11009445 original size:60 final size:57
Alignment explanation
Indices: 11009284--11009454 Score: 161
Period size: 60 Copynumber: 2.9 Consensus size: 57
11009274 TAGATCAGAA
* *
11009284 GTCACTCAACTATTGC-C--TT-TTTTTTAATCACCCAACTATCAATTATTTTAATTTG
1 GTCACTCAACTATTGCTCTTTTCTTTTTTAGTCACCCAACTATC-ATT-TTTTAATCTG
* * * ** * *
11009339 GCCACCTAAATTATTTTTACTTTTCTTTTTTAGTCACCTAATTATCAGTTCTTTTAATCTG
1 GTCA-CTCAACTATTGCT-CTTTTCTTTTTTAGTCACCCAACTATCA-TT-TTTTAATCTG
*
11009400 GTCACTCAACTATTGCTCTTTTTCTTTTTTGGTCACCCAACTATCATTTTTTAAT
1 GTCACTCAACTATTGCTC-TTTTCTTTTTTAGTCACCCAACTATCATTTTTTAAT
11009455 TTGATCACCC
Statistics
Matches: 90, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
55 3 0.03
56 8 0.09
58 8 0.09
59 3 0.03
60 36 0.40
61 32 0.36
ACGTcount: A:0.23, C:0.22, G:0.06, T:0.49
Consensus pattern (57 bp):
GTCACTCAACTATTGCTCTTTTCTTTTTTAGTCACCCAACTATCATTTTTTAATCTG
Found at i:11009968 original size:28 final size:28
Alignment explanation
Indices: 11009936--11009991 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
11009926 TATTCTAACA
11009936 AAAACAATTATAACGATAGATTCAAATG
1 AAAACAATTATAACGATAGATTCAAATG
11009964 AAAACAATTATAACGATAGATTCAAATG
1 AAAACAATTATAACGATAGATTCAAATG
11009992 GTGTTTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.25
Consensus pattern (28 bp):
AAAACAATTATAACGATAGATTCAAATG
Found at i:11013764 original size:36 final size:36
Alignment explanation
Indices: 11013723--11013792 Score: 124
Period size: 36 Copynumber: 1.9 Consensus size: 36
11013713 ATTTTATTTT
11013723 GAATAATTTTAGATAAA-AGTTGAAGATAATAATTGA
1 GAATAATTTTAGATAAAGA-TTGAAGATAATAATTGA
11013759 GAATAATTTTAGATAAAGATTGAAGATAATAATT
1 GAATAATTTTAGATAAAGATTGAAGATAATAATT
11013793 TCGATATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
36 32 0.97
37 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (36 bp):
GAATAATTTTAGATAAAGATTGAAGATAATAATTGA
Found at i:11013841 original size:21 final size:23
Alignment explanation
Indices: 11013805--11013849 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
11013795 GATATTTTAA
11013805 ATTTAAAAATATAAAAT-AATTT
1 ATTTAAAAATATAAAATCAATTT
*
11013827 ATTTCAAAA-ATAAAATCAATTT
1 ATTTAAAAATATAAAATCAATTT
11013849 A
1 A
11013850 ATATTTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
ATTTAAAAATATAAAATCAATTT
Found at i:11014262 original size:26 final size:26
Alignment explanation
Indices: 11014213--11014274 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
11014203 AATGTCCTTA
*
11014213 ATAATATTTTTTTTTGCAAAAAATAAT
1 ATAATATTATTTTTT-CAAAAAATAAT
*
11014240 ATAATATTATTTTTT-AAAGAAATATT
1 ATAATATTATTTTTTCAAA-AAATAAT
*
11014266 ATGATATTA
1 ATAATATTA
11014275 AACTACTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.10
26 14 0.45
27 14 0.45
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (26 bp):
ATAATATTATTTTTTCAAAAAATAAT
Found at i:11015222 original size:16 final size:16
Alignment explanation
Indices: 11015195--11015235 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
11015185 ACGGAATTAA
*
11015195 AATTAGATTGAAAATTT
1 AATTA-ATTGAAAAATT
*
11015212 ATTTAATTGAAAAATT
1 AATTAATTGAAAAATT
11015228 AATTAATT
1 AATTAATT
11015236 TAATTTGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (16 bp):
AATTAATTGAAAAATT
Found at i:11015260 original size:17 final size:17
Alignment explanation
Indices: 11015238--11015270 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11015228 AATTAATTTA
*
11015238 ATTTGATTAATTAAATG
1 ATTTGATTAAATAAATG
11015255 ATTTGATTAAATAAAT
1 ATTTGATTAAATAAAT
11015271 AATACTTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (17 bp):
ATTTGATTAAATAAATG
Found at i:11017739 original size:29 final size:27
Alignment explanation
Indices: 11017703--11017758 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 27
11017693 TAAAGTGCAC
11017703 TTTTATTGAAATTTATCATTATACTTTT
1 TTTTATTGAAATTTATCATTATA-TTTT
* *
11017731 TTTTCATTGATATTTATTATTATATTTT
1 TTTT-ATTGAAATTTATCATTATATTTT
11017759 GAAATTATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.64
Consensus pattern (27 bp):
TTTTATTGAAATTTATCATTATATTTT
Found at i:11018200 original size:12 final size:13
Alignment explanation
Indices: 11018173--11018206 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
11018163 ATTTTAAATT
*
11018173 AAAAATGAATAGA
1 AAAAATTAATAGA
11018186 AAAAATTAATA-A
1 AAAAATTAATAGA
11018198 AAAAATTAA
1 AAAAATTAA
11018207 CTTTAGTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (13 bp):
AAAAATTAATAGA
Found at i:11025608 original size:17 final size:19
Alignment explanation
Indices: 11025572--11025607 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11025562 TGTCACTATG
*
11025572 TATATTGAAATTTAAAAAA
1 TATATTGAAATGTAAAAAA
11025591 TATATT-AAATGTAAAAA
1 TATATTGAAATGTAAAAA
11025608 TGTGGTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (19 bp):
TATATTGAAATGTAAAAAA
Found at i:11025752 original size:17 final size:17
Alignment explanation
Indices: 11025713--11025754 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
11025703 TCAATTTTAA
11025713 TATAAAT-ATTTAATAT
1 TATAAATAATTTAATAT
*
11025729 GATTAAATAATTTAATAT
1 TA-TAAATAATTTAATAT
11025747 TATAAATA
1 TATAAATA
11025755 GTACAAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 1 0.05
17 11 0.50
18 10 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
TATAAATAATTTAATAT
Found at i:11025825 original size:6 final size:6
Alignment explanation
Indices: 11025816--11025842 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11025806 ATTATTATTA
11025816 TTTAGG TTTAGG TTTAGG TTTAGG TTT
1 TTTAGG TTTAGG TTTAGG TTTAGG TTT
11025843 TTTTGGATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.56
Consensus pattern (6 bp):
TTTAGG
Found at i:11026212 original size:29 final size:29
Alignment explanation
Indices: 11026176--11026255 Score: 117
Period size: 29 Copynumber: 2.8 Consensus size: 29
11026166 GGATGAGAGG
11026176 GGAGTAAAAGTTTC-GAGAGAAAGTGAGAA
1 GGAGTAAAAGTTTCGGAG-GAAAGTGAGAA
11026205 GGAGTAAAAGTTTCGGAGGAAAGTGAGAA
1 GGAGTAAAAGTTTCGGAGGAAAGTGAGAA
* * *
11026234 AGAGTAAAAGTTTTGGGGGAAA
1 GGAGTAAAAGTTTCGGAGGAAA
11026256 AGTAAAAATG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 44 0.94
30 3 0.06
ACGTcount: A:0.42, C:0.03, G:0.36, T:0.19
Consensus pattern (29 bp):
GGAGTAAAAGTTTCGGAGGAAAGTGAGAA
Found at i:11026255 original size:21 final size:21
Alignment explanation
Indices: 11026231--11026273 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
11026221 AGGAAAGTGA
*
11026231 GAAAGAGTAAAAGT-TTTGGGG
1 GAAA-AGTAAAAATGTTTGGGG
11026252 GAAAAGTAAAAATGTTTGGGG
1 GAAAAGTAAAAATGTTTGGGG
11026273 G
1 G
11026274 TTTGGGGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.40, C:0.00, G:0.37, T:0.23
Consensus pattern (21 bp):
GAAAAGTAAAAATGTTTGGGG
Found at i:11027721 original size:30 final size:30
Alignment explanation
Indices: 11027676--11027810 Score: 114
Period size: 29 Copynumber: 4.6 Consensus size: 30
11027666 TTTAGAGGGC
* *
11027676 AAAATGGAAAATTTGGGAAAATTTGGGG-TA
1 AAAATGG-AATTTTTGGAAAATTTGGGGATA
*
11027706 AAAATGGAATTTTTGG-AAGTTTGGGGATA
1 AAAATGGAATTTTTGGAAAATTTGGGGATA
*** ** *
11027735 AAAACATAATTTTTGGAAGTTTTGGGGTTA
1 AAAATGGAATTTTTGGAAAATTTGGGGATA
* * *
11027765 AAAATGGAATTTTTAG-AAGTTTGGGGATC
1 AAAATGGAATTTTTGGAAAATTTGGGGATA
**
11027794 AAAATACAATTTTTGGA
1 AAAATGGAATTTTTGGA
11027811 CAGTTTAAAG
Statistics
Matches: 82, Mismatches: 20, Indels: 6
0.76 0.19 0.06
Matches are distributed among these distances:
28 9 0.11
29 44 0.54
30 29 0.35
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.34
Consensus pattern (30 bp):
AAAATGGAATTTTTGGAAAATTTGGGGATA
Found at i:11027736 original size:29 final size:29
Alignment explanation
Indices: 11027697--11027816 Score: 143
Period size: 29 Copynumber: 4.1 Consensus size: 29
11027687 TTTGGGAAAA
*
11027697 TTTGGGG-TAAAAATGGAATTTTTGGAAG
1 TTTGGGGATAAAAATAGAATTTTTGGAAG
* *
11027725 TTTGGGGATAAAAACATAATTTTTGGAAG
1 TTTGGGGATAAAAATAGAATTTTTGGAAG
* * *
11027754 TTTTGGGGTTAAAAATGGAATTTTTAGAAG
1 -TTTGGGGATAAAAATAGAATTTTTGGAAG
* *
11027784 TTTGGGGATCAAAATACAATTTTTGGACAG
1 TTTGGGGATAAAAATAGAATTTTTGGA-AG
11027814 TTT
1 TTT
11027817 AAAGACCTCC
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
28 7 0.09
29 40 0.53
30 29 0.38
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (29 bp):
TTTGGGGATAAAAATAGAATTTTTGGAAG
Found at i:11027770 original size:59 final size:59
Alignment explanation
Indices: 11027697--11027816 Score: 188
Period size: 59 Copynumber: 2.0 Consensus size: 59
11027687 TTTGGGAAAA
* *
11027697 TTTGGGGTAAAAATGGAATTTTTGGAAGTTTGGGGATAAAAACATAATTTTTGGA-AGT
1 TTTGGGGTAAAAATGGAATTTTTAGAAGTTTGGGGATAAAAACACAATTTTTGGACAGT
* *
11027755 TTTGGGGTTAAAAATGGAATTTTTAGAAGTTTGGGGATCAAAATACAATTTTTGGACAGT
1 TTTGGGG-TAAAAATGGAATTTTTAGAAGTTTGGGGATAAAAACACAATTTTTGGACAGT
11027815 TT
1 TT
11027817 AAAGACCTCC
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
58 7 0.12
59 44 0.79
60 5 0.09
ACGTcount: A:0.33, C:0.03, G:0.26, T:0.38
Consensus pattern (59 bp):
TTTGGGGTAAAAATGGAATTTTTAGAAGTTTGGGGATAAAAACACAATTTTTGGACAGT
Found at i:11029905 original size:11 final size:11
Alignment explanation
Indices: 11029889--11029962 Score: 60
Period size: 11 Copynumber: 6.5 Consensus size: 11
11029879 TTATAATAAT
11029889 ATTAAATTCAA
1 ATTAAATTCAA
11029900 ATTAAATTCAA
1 ATTAAATTCAA
*
11029911 ATTTAAATTAAA
1 A-TTAAATTCAA
*
11029923 ATTGAAATTGAA
1 ATT-AAATTCAA
* *
11029935 TTTAAAAT-AA
1 ATTAAATTCAA
*
11029945 ATTTAATTTCAA
1 A-TTAAATTCAA
*
11029957 AGTAAA
1 ATTAAA
11029963 AAAAGGTTTG
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
10 2 0.04
11 26 0.52
12 22 0.44
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (11 bp):
ATTAAATTCAA
Found at i:11029916 original size:23 final size:22
Alignment explanation
Indices: 11029890--11029957 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
11029880 TATAATAATA
11029890 TTAAATTCAAATTAAATTCAAAT
1 TTAAATT-AAATTAAATTCAAAT
*
11029913 TTAAATTAAAATTGAAATT-GAAT
1 TTAAATT-AAATT-AAATTCAAAT
* *
11029936 TTAAAATAAATTTAATTTCAAA
1 TTAAATTAAA-TTAAATTCAAA
11029958 GTAAAAAAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
22 7 0.19
23 25 0.68
24 5 0.14
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (22 bp):
TTAAATTAAATTAAATTCAAAT
Found at i:11033446 original size:29 final size:28
Alignment explanation
Indices: 11033414--11033570 Score: 106
Period size: 30 Copynumber: 5.4 Consensus size: 28
11033404 TTAAAAATAG
*
11033414 AATTTTAGAAACTTTGAGGGTAAAATGGT
1 AATTTTAGAAA-TTCGAGGGTAAAATGGT
* * *
11033443 AATTTTCGGTAAAATCGAGGTTAAAATGG-
1 AATTTT-AG-AAATTCGAGGGTAAAATGGT
*
11033472 AATTTTAGAAGATTCGGGGGTAAAATGGT
1 AATTTTAGAA-ATTCGAGGGTAAAATGGT
*
11033501 AATTTACGATGAAATT--AGGGTTAAAAATGG-
1 AATTT--TA-GAAATTCGAGGG-T-AAAATGGT
* * *
11033531 GATTTTAAAAGATTCGGGGGTAAAATGGT
1 AATTTTAGAA-ATTCGAGGGTAAAATGGT
11033560 AATTTTTAGAA
1 AA-TTTTAGAA
11033571 GTTTCGGGAT
Statistics
Matches: 98, Mismatches: 16, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
27 4 0.04
28 26 0.27
29 22 0.22
30 29 0.30
31 14 0.14
32 3 0.03
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.32
Consensus pattern (28 bp):
AATTTTAGAAATTCGAGGGTAAAATGGT
Found at i:11033468 original size:59 final size:58
Alignment explanation
Indices: 11033370--11033565 Score: 236
Period size: 58 Copynumber: 3.4 Consensus size: 58
11033360 TATGGATACC
* * *
11033370 CGGGGGCAAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATAGAATTTTAGAAACTT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAA-TT
* * *
11033428 TGAGGGTAAAATGGTAATTTTCGGTAAAATCGAGGTT-AAAATGGAATTTTAGAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGAGGTTAAAAATGGAATTTTAGAA-ATT
* * * * *
11033486 CGGGGGTAAAATGGTAATTTACGATGAAAT-TAGGGTTAAAAATGGGATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTCGGTGAAATCGA-GGTTAAAAATGGAATTTTAGAA-ATT
11033545 CGGGGGTAAAATGGTAATTTT
1 CGGGGGTAAAATGGTAATTTT
11033566 TAGAAGTTTC
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
57 1 0.01
58 65 0.55
59 53 0.45
ACGTcount: A:0.37, C:0.05, G:0.28, T:0.31
Consensus pattern (58 bp):
CGGGGGTAAAATGGTAATTTTCGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAATT
Found at i:11033469 original size:30 final size:28
Alignment explanation
Indices: 11033377--11033477 Score: 87
Period size: 29 Copynumber: 3.5 Consensus size: 28
11033367 ACCCGGGGGC
* *
11033377 AAAATGGTAATTTTGGTGAAATCGGGGTT
1 AAAATGG-AATTTTGGTAAAATCGAGGTT
* * * * *
11033406 AAAAATAGAATTTTAG-AAACTTTGAGGGT
1 -AAAATGGAATTTTGGTAAA-ATCGAGGTT
11033435 AAAATGGTAATTTTCGGTAAAATCGAGGTT
1 AAAATGG-AATTTT-GGTAAAATCGAGGTT
11033465 AAAATGGAATTTT
1 AAAATGGAATTTT
11033478 AGAAGATTCG
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
28 8 0.15
29 24 0.44
30 20 0.36
31 3 0.05
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.34
Consensus pattern (28 bp):
AAAATGGAATTTTGGTAAAATCGAGGTT
Found at i:11033577 original size:30 final size:28
Alignment explanation
Indices: 11033398--11033578 Score: 100
Period size: 28 Copynumber: 6.2 Consensus size: 28
11033388 TTTGGTGAAA
* *
11033398 TCGGGGTTAAAAATAGAATTTTAGAA-ACT
1 TCGGGGGT-AAAATGGAATTTTAGAAGA-T
* * * *
11033427 TTGAGGGTAAAATGGTAATTTTCGGTAA-AA
1 TCGGGGGTAAAATGG-AATTTT-AG-AAGAT
* *
11033457 TCGAGGTTAAAATGGAATTTTAGAAGAT
1 TCGGGGGTAAAATGGAATTTTAGAAGAT
*
11033485 TCGGGGGTAAAATGGTAA-TTTACGATGAAAT
1 TCGGGGGTAAAATGG-AATTTTA-GA--AGAT
* * * *
11033516 T-AGGGTTAAAAATGGGATTTTAAAAGAT
1 TCGGGGGT-AAAATGGAATTTTAGAAGAT
*
11033544 TCGGGGGTAAAATGGTAATTTTTAGAAGTT
1 TCGGGGGTAAAATGG-AA-TTTTAGAAGAT
11033574 TCGGG
1 TCGGG
11033579 ATCAAAATAT
Statistics
Matches: 116, Mismatches: 23, Indels: 25
0.71 0.14 0.15
Matches are distributed among these distances:
27 2 0.02
28 36 0.31
29 26 0.22
30 34 0.29
31 18 0.16
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.32
Consensus pattern (28 bp):
TCGGGGGTAAAATGGAATTTTAGAAGAT
Found at i:11033603 original size:30 final size:30
Alignment explanation
Indices: 11033569--11033683 Score: 203
Period size: 30 Copynumber: 3.8 Consensus size: 30
11033559 TAATTTTTAG
* *
11033569 AAGTTTCGGGATCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATATAATTTTGGAA
11033599 AAGTTTTGGGGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATATAATTTTGGAA
*
11033629 AAGTTTTGGGGTTAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATATAATTTTGGAA
11033659 AAGTTTTGGGGTCAAAATATAATTT
1 AAGTTTTGGGGTCAAAATATAATTT
11033684 CTAGACAATT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 81 1.00
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.37
Consensus pattern (30 bp):
AAGTTTTGGGGTCAAAATATAATTTTGGAA
Found at i:11034945 original size:19 final size:19
Alignment explanation
Indices: 11034903--11034964 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
11034893 TATTACTAAC
11034903 ATTATTATTACTAATTATT
1 ATTATTATTACTAATTATT
* *
11034922 GTTATTATTATTAA-TATTT
1 ATTATTATTACTAATTA-TT
* *
11034941 ATTA-TATTAATAGTTATT
1 ATTATTATTACTAATTATT
*
11034959 AATATT
1 ATTATT
11034965 TTAGCTACTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 14 0.41
19 20 0.59
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (19 bp):
ATTATTATTACTAATTATT
Found at i:11035726 original size:17 final size:17
Alignment explanation
Indices: 11035705--11035792 Score: 85
Period size: 17 Copynumber: 5.2 Consensus size: 17
11035695 GGACTTTCTT
11035705 TTTAAATTTATAA-TAACA
1 TTTAAATTTA-AATTAA-A
11035723 -TTAAATTTAAATTAAA
1 TTTAAATTTAAATTAAA
11035739 TTTAAATTTAAATTTAAA
1 TTTAAATTTAAA-TTAAA
* *
11035757 -TTGAATTTAAAATAAA
1 TTTAAATTTAAATTAAA
*
11035773 TTTAAGA-TTAAAATAAA
1 TTTAA-ATTTAAATTAAA
11035790 TTT
1 TTT
11035793 GATTTTCAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
16 7 0.11
17 49 0.79
18 6 0.10
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (17 bp):
TTTAAATTTAAATTAAA
Found at i:11035732 original size:6 final size:6
Alignment explanation
Indices: 11035723--11035777 Score: 71
Period size: 6 Copynumber: 9.7 Consensus size: 6
11035713 TATAATAACA
*
11035723 TTAAAT TTAAA- TTAAAT TTAAAT TTAAAT TTAAA- TTGAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
11035768 ATAAAT TTAA
1 TTAAAT TTAA
11035778 GATTAAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
5 13 0.31
6 29 0.69
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (6 bp):
TTAAAT
Found at i:11035738 original size:11 final size:11
Alignment explanation
Indices: 11035722--11035784 Score: 90
Period size: 11 Copynumber: 5.5 Consensus size: 11
11035712 TTATAATAAC
11035722 ATTAAATTTAA
1 ATTAAATTTAA
11035733 ATTAAATTTAA
1 ATTAAATTTAA
11035744 ATTTAAATTTAA
1 A-TTAAATTTAA
*
11035756 ATTGAATTTAA
1 ATTAAATTTAA
*
11035767 AATAAATTTAA
1 ATTAAATTTAA
11035778 GATTAAA
1 -ATTAAA
11035785 ATAAATTTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
11 30 0.65
12 16 0.35
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:11035804 original size:34 final size:34
Alignment explanation
Indices: 11035705--11035791 Score: 99
Period size: 34 Copynumber: 2.6 Consensus size: 34
11035695 GGACTTTCTT
* * *
11035705 TTTAAATTTATAATA-ACATTAAATTTAAATTAAA
1 TTTAAATTTA-AATATAAATTGAATTTAAAATAAA
*
11035739 TTTAAATTTAAATTTAAATTGAATTTAAAATAAA
1 TTTAAATTTAAATATAAATTGAATTTAAAATAAA
11035773 TTTAAGA-TTAAA-ATAAATT
1 TTTAA-ATTTAAATATAAATT
11035792 TGATTTTCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
33 9 0.20
34 36 0.78
35 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (34 bp):
TTTAAATTTAAATATAAATTGAATTTAAAATAAA
Found at i:11036351 original size:145 final size:143
Alignment explanation
Indices: 11036072--11036692 Score: 782
Period size: 145 Copynumber: 4.3 Consensus size: 143
11036062 GCTCTTTAGG
* * * *
11036072 GAGATAAAGACTTTGCTATCCAACTTTACTTCAATTTCTAGAGGATAGGAAATGATGTTACTCTT
1 GAGATAAAGAC-GTGTTATCCAACTCTACTTCAATTTC-AGAGGATAGGAAATGATCTTACTCTT
* * * *
11036137 ACTTCAATTTCAGAGATGAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATGATGTTGC
64 ACTTCAATTTCAGAGATGAAGACGTGATATCC-ACTCTACTTCAATTTCAAGAGGATGACGTTGC
11036202 TCTTACTTCAATTTCA
128 TCTTACTTCAATTTCA
* *
11036218 GAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCCAGCA-AATAGGGAAA-GATCTTGCTCT
1 GAGATAAAGACGTGTTATCCAACTCTACTTCAATTT-CAG-AGGATA-GGAAATGATCTTACTCT
* * *
11036281 TACTTCAATTTCAGAGAT-AATGGCTTGATATCCAACCCTACTTCAATTTCAAGAGGATGACGTT
63 TACTTCAATTTCAGAGATGAA-GACGTGATATCC-ACTCTACTTCAATTTCAAGAGGATGACGTT
*
11036345 GTTCTTACTTCAATTTCA
126 GCTCTTACTTCAATTTCA
* * * * *
11036363 GAGATAAAGACTTGATATCCAATTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTACTCTTA
1 GAGATAAAGACGTGTTATCCAACTCTACTTCAATTTC-AGAGGATAGGAAATGATCTTACTCTTA
*
11036428 CTTCAATTTCAGAGATGAAGACGT-ATTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCT
65 CTTCAATTTCAGAGATGAAGACGTGA-TATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCT
11036492 CTTACTTCAATTTCA
129 CTTACTTCAATTTCA
** *
11036507 GAGACGAAGACGTGTTATCC-ACTCTACTTCAATTTCA-AGG---GG--ATGA-CGTTGCTCTTA
1 GAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAGAGGATAGGAAATGATC-TTACTCTTA
* * *
11036564 CTTCAATTTCAGAGACGAAGACGTGTTATCCACTCTACTTCAATTTCAAGGGGATGACGTTGCTC
65 CTTCAATTTCAGAGATGAAGACGTGATATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTC
11036629 TTACTTCAATTTCA
130 TTACTTCAATTTCA
** *
11036643 GAGACGAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGGGGATAGGAAA
1 GAGATAAAGACGTGTTATCCAACTCTACTTCAATTTC-AGAGGATAGGAAA
11036693 AGGTCTTGTT
Statistics
Matches: 422, Mismatches: 35, Indels: 39
0.85 0.07 0.08
Matches are distributed among these distances:
136 124 0.29
137 1 0.00
138 4 0.01
141 5 0.01
142 1 0.00
143 15 0.04
144 71 0.17
145 181 0.43
146 20 0.05
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33
Consensus pattern (143 bp):
GAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAGAGGATAGGAAATGATCTTACTCTTAC
TTCAATTTCAGAGATGAAGACGTGATATCCACTCTACTTCAATTTCAAGAGGATGACGTTGCTCT
TACTTCAATTTCA
Done.