Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 117 of 325
Found at i:37803645 original size:15 final size:15
Alignment explanation
Indices: 37803624--37803661 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
37803614 ATACAAGTTA
*
37803624 AAAAAAAGGAAAATTC
1 AAAAAAA-GAAAAATC
37803640 AAAAAAAGAAAAATC
1 AAAAAAAGAAAAATC
37803655 AAAAAAA
1 AAAAAAA
37803662 AAATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.79, C:0.05, G:0.08, T:0.08
Consensus pattern (15 bp):
AAAAAAAGAAAAATC
Found at i:37803662 original size:16 final size:17
Alignment explanation
Indices: 37803623--37803662 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
37803613 TATACAAGTT
*
37803623 AAAAAAAAGGAAAATTC
1 AAAAAAAAGGAAAAATC
37803640 -AAAAAAA-GAAAAATC
1 AAAAAAAAGGAAAAATC
37803655 AAAAAAAA
1 AAAAAAAA
37803663 AATAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.80, C:0.05, G:0.07, T:0.07
Consensus pattern (17 bp):
AAAAAAAAGGAAAAATC
Found at i:37809349 original size:50 final size:52
Alignment explanation
Indices: 37809240--37809356 Score: 157
Period size: 50 Copynumber: 2.3 Consensus size: 52
37809230 ATGAACAAAT
* * * * *
37809240 GAGTTACTTATTGCATGACTTAATTTAATGATGCAGACTTTAACTAACATGG
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
* *
37809292 GAGTTACATAATGCATGTCATAATTT-ATTATGCAAAC-TTAACTAACATGA
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
37809342 GAGTTACATAATGCA
1 GAGTTACATAATGCA
37809357 CAACTTTATT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 27 0.47
51 9 0.16
52 22 0.38
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (52 bp):
GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
Found at i:37812053 original size:46 final size:45
Alignment explanation
Indices: 37811930--37812067 Score: 188
Period size: 45 Copynumber: 3.0 Consensus size: 45
37811920 AAAGTGTGGC
* * *
37811930 GTTCATTTATACCGAGGTTCCTATCATTCTTGATAGTGGATTGAG
1 GTTCATATATACCGAGGTTCCTATCATTCTTGATAGTGGGTCGAG
* * * *
37811975 ATTCATTTATATCGAGGTTCCTATCATCCTTGATAGTGGGTCGAG
1 GTTCATATATACCGAGGTTCCTATCATTCTTGATAGTGGGTCGAG
37812020 GTTCATCATATACC-AGGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCAT-ATATACCGA-GGTTCCTATCATTCTTGATAGTGGGTCGAG
37812066 GT
1 GT
37812068 CTTTTCTTTG
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
45 46 0.56
46 36 0.44
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (45 bp):
GTTCATATATACCGAGGTTCCTATCATTCTTGATAGTGGGTCGAG
Found at i:37812816 original size:37 final size:37
Alignment explanation
Indices: 37812742--37812816 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
37812732 ATTTGAAAGA
* * *
37812742 AAATATTGGTTGATATGAGCATAGTAAATCTTCGGCT
1 AAATATGGGCTGATATGAGCATAGTAAAGCTTCGGCT
* *
37812779 AAATATGGGCTGATATGAGCATAGTAAAGGTTTGGCT
1 AAATATGGGCTGATATGAGCATAGTAAAGCTTCGGCT
37812816 A
1 A
37812817 GGCTTGGGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.32
Consensus pattern (37 bp):
AAATATGGGCTGATATGAGCATAGTAAAGCTTCGGCT
Found at i:37826249 original size:14 final size:14
Alignment explanation
Indices: 37826230--37826274 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
37826220 AACTCATCTT
*
37826230 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
37826244 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
37826257 AATTTAATTTAATG
1 AGTTTAATTTAATG
37826271 AGTT
1 AGTT
37826275 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:37827290 original size:29 final size:29
Alignment explanation
Indices: 37827257--37827314 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
37827247 ATAACCAAAC
*
37827257 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
37827286 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
37827315 ATTTGAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:37827309 original size:15 final size:15
Alignment explanation
Indices: 37827263--37827310 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
37827253 AAACCTACAA
*
37827263 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
37827278 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
37827292 AAACTTCATATCCAT
1 AAACTTCATATCCAT
37827307 AAAC
1 AAAC
37827311 CCATATTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:37830155 original size:14 final size:14
Alignment explanation
Indices: 37830136--37830180 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
37830126 AACTCATCTT
*
37830136 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
37830150 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
37830163 AATTTAATTTAATG
1 AGTTTAATTTAATG
37830177 AGTT
1 AGTT
37830181 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:37831190 original size:29 final size:29
Alignment explanation
Indices: 37831157--37831214 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
37831147 ATAACCAAAC
*
37831157 CTACAAAAACTTTATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
37831186 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
37831215 ATTTGAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.28
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:37831209 original size:15 final size:15
Alignment explanation
Indices: 37831163--37831210 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
37831153 AAACCTACAA
*
37831163 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
37831178 AAAC-CCATCTACAT
1 AAACTTCATATCCAT
37831192 AAACTTCATATCCAT
1 AAACTTCATATCCAT
37831207 AAAC
1 AAAC
37831211 CCATATTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:37832633 original size:39 final size:39
Alignment explanation
Indices: 37832553--37832633 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
37832543 GAACACATAT
* **
37832553 TAATGATACTCAAACTATGACATAATTAAAGACTCGTAC
1 TAATGATACTCAAACTATGACATAATTAAAGACACAAAC
**
37832592 TAATGATGTTCAAACTATGACATAATTAAAGACACAAAC
1 TAATGATACTCAAACTATGACATAATTAAAGACACAAAC
37832631 TAA
1 TAA
37832634 AATAACTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.27
Consensus pattern (39 bp):
TAATGATACTCAAACTATGACATAATTAAAGACACAAAC
Found at i:37837941 original size:45 final size:45
Alignment explanation
Indices: 37837882--37838035 Score: 211
Period size: 45 Copynumber: 3.4 Consensus size: 45
37837872 CGATGTCGAT
* * *
37837882 GTCCCAGACATGGTCTTACACGTAACCACATAGATCGATGTCAAT
1 GTCCCAGACGTGGTCTTACACGTAACCACATAGATCGATGCCAAC
* *
37837927 GTCCTAGACGTGGTCTTACATGTAACCACATAGATCGATGCCAAC
1 GTCCCAGACGTGGTCTTACACGTAACCACATAGATCGATGCCAAC
* ** *
37837972 GTCCCAAACGTGGTCTTACACAAAAACA-ATTAGATCGATGCCAAC
1 GTCCCAGACGTGGTCTTACACGTAACCACA-TAGATCGATGCCAAC
37838017 GTCCCAGACGTGGTCTTAC
1 GTCCCAGACGTGGTCTTAC
37838036 TCTGAAACAC
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 1 0.01
45 95 0.99
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (45 bp):
GTCCCAGACGTGGTCTTACACGTAACCACATAGATCGATGCCAAC
Found at i:37842588 original size:27 final size:27
Alignment explanation
Indices: 37842558--37842675 Score: 148
Period size: 27 Copynumber: 4.4 Consensus size: 27
37842548 GGGTAAAATC
* * *
37842558 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
37842585 GTAATTCTACCCTAC-AGGGTTATTTCG
1 GTAATTCTACCCTACAAGGG-TATTTCG
* * *
37842612 ATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
37842639 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
37842666 GTAATTCTAC
1 GTAATTCTAC
37842676 AACTTATCCA
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
26 4 0.05
27 74 0.91
28 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCG
Found at i:37845114 original size:96 final size:96
Alignment explanation
Indices: 37844974--37845244 Score: 355
Period size: 96 Copynumber: 2.8 Consensus size: 96
37844964 AATAATGCCA
* * * *
37844974 ATGCTATGTCCCAGACATGGTCTTTCACTGGCTTATCCATCAAGTCGATGCCATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAGACAT
* * *
37845039 GGTTTTACACTAACTATCAAAATTGAGGTCG
66 GGTCTTACACTAACTATCAAAATCGAGGCCG
* *
37845070 ATGCCATGTCCCATACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAAACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAGACAT
*
37845135 GGTCTTACACTGACTATCAAAATCGAGGCCG
66 GGTCTTACACTAACTATCAAAATCGAGGCCG
*** ** *
37845166 ACAACATGTCCCAGACATGGTCTTACACTAGCTC-TCACATACCCGTGCCGATGCCATGCCCCAG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-CAT-CAAGT--CGATGCCATGTCCCAG
37845230 ACATGGTCTTACACT
62 ACATGGTCTTACACT
37845245 GACACATCTT
Statistics
Matches: 153, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
95 2 0.01
96 119 0.78
97 3 0.02
99 29 0.19
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAGACAT
GGTCTTACACTAACTATCAAAATCGAGGCCG
Found at i:37845135 original size:47 final size:47
Alignment explanation
Indices: 37844974--37845390 Score: 280
Period size: 49 Copynumber: 8.7 Consensus size: 47
37844964 AATAATGCCA
* * *
37844974 ATGCTATGTCCCAGACATGGTCTTTCACTGGCTTATC-CATCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC-TATCACATCAAGTCG
* * * * *
37845021 ATGCCATGTCCCAGACATGGTTTTACACTAACTATCAAAATTGAGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATC-ACA-TCAAGTCG
*
37845070 ATGCCATGTCCCATACATGGTCTTACACTAGCTCATC-CATCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT-ATCACATCAAGTCG
* * * *
37845117 ATGCCATGTCCCAAACATGGTCTTACACT-GACTATCAAAATCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTATC-ACATC-AAGTCG
*** * **
37845166 ACAACATGTCCCAGACATGGTCTTACACTAGCTCTCACATACCCGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCACAT-CAAGT--CG
* ** *
37845216 ATGCCATGCCCCAGACATGGTCTTACACT-G--A-CACATCTTGTAGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCACATCAAGT--C-G
* * * *
37845262 ATG-CATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCAC--AT-CAAGTCG
* * *
37845311 ATGCCATGCCCCAGACAT-GTATTACCCTAGC-ACTCATC-TCAATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCA-CATCAA-GTCG
* * **
37845358 ATGTCATGTCCTAGATTTGGTCTTACACTAGCT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT
37845391 CACAATAACC
Statistics
Matches: 287, Mismatches: 57, Indels: 50
0.73 0.14 0.13
Matches are distributed among these distances:
45 27 0.09
46 19 0.07
47 80 0.28
48 20 0.07
49 91 0.32
50 45 0.16
51 2 0.01
52 3 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTATCACATCAAGTCG
Found at i:37847129 original size:16 final size:18
Alignment explanation
Indices: 37847098--37847130 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
37847088 AACTCGTCAC
37847098 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
37847116 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
37847131 AATTCGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:37851663 original size:19 final size:19
Alignment explanation
Indices: 37851639--37851675 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
37851629 AAATTTAGTC
*
37851639 CTATATTTATTATATTATT
1 CTATATTAATTATATTATT
*
37851658 CTATATTAATTGTATTAT
1 CTATATTAATTATATTAT
37851676 GGATTGATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (19 bp):
CTATATTAATTATATTATT
Found at i:37853258 original size:14 final size:16
Alignment explanation
Indices: 37853239--37853271 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
37853229 CGATATTCTT
37853239 TTTGCATTT-AT-GCA
1 TTTGCATTTCATAGCA
37853253 TTTGCATTTCATAGCA
1 TTTGCATTTCATAGCA
37853269 TTT
1 TTT
37853272 CATCACATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 2 0.12
16 6 0.35
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.52
Consensus pattern (16 bp):
TTTGCATTTCATAGCA
Found at i:37854547 original size:24 final size:24
Alignment explanation
Indices: 37854502--37854547 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
37854492 CTTCAATTCG
* * *
37854502 AAAGTAGTCACGGTTAGTCAACCC
1 AAAGTAGCCACAGTTAGGCAACCC
*
37854526 AAAGTAGCCACAGTTGGGCAAC
1 AAAGTAGCCACAGTTAGGCAAC
37854548 AGGGCTCTCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (24 bp):
AAAGTAGCCACAGTTAGGCAACCC
Found at i:37863114 original size:118 final size:117
Alignment explanation
Indices: 37862880--37863238 Score: 587
Period size: 118 Copynumber: 3.0 Consensus size: 117
37862870 GTAATAGGCT
*
37862880 TCAATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGTATTCT
1 TCAATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCT
* *
37862945 TGTGTTTACAAGAAACAAATCGAGGACATAGAAAATTTGACTCTCAGATGTTC
66 TGTGTTTACAAGAAACAAATCGAGGACATAGAGAA-TTGACTCTCAAATGTTC
*
37862998 TCAACTATAGCAGATCTAGCTTTCAGATGTTTATACTGGAGCAGATCCAAGATGA-TTGGTATTC
1 TCAA-TATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTC
37863062 TTGTGTTTACAAGAAACAAATCGAGGACATAGCAGAATTGACTCTCAAATGTTC
65 TTGTGTTTACAAGAAACAAATCGAGGACATAG-AGAATTGACTCTCAAATGTTC
* *
37863116 TCAAATATAGCAGATCTAGCTTTCAGATGTTTATAGTGAAGCAGATCTAAGATGATTTGGTATTC
1 TC-AATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTC
*
37863181 TTGTGTTTACAAGGAACAAATCGAGGACATAGTAG-ATTGGACTCTCAAATGTTC
65 TTGTGTTTACAAGAAACAAATCGAGGACATAG-AGAATT-GACTCTCAAATGTTC
37863235 TCAA
1 TCAA
37863239 ACAAACTCAA
Statistics
Matches: 227, Mismatches: 9, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
118 114 0.50
119 113 0.50
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (117 bp):
TCAATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCT
TGTGTTTACAAGAAACAAATCGAGGACATAGAGAATTGACTCTCAAATGTTC
Found at i:37863239 original size:119 final size:118
Alignment explanation
Indices: 37862882--37863239 Score: 592
Period size: 119 Copynumber: 3.0 Consensus size: 118
37862872 AATAGGCTTC
*
37862882 AATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTAGTATTCTTG
1 AATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
* *
37862947 TGTTTACAAGAAACAAATCGAGGACATAGAAAATTTGACTCTCAGATGTTCTCA
66 TGTTTACAAGAAACAAATCGAGGACATAGAAGA-TTGACTCTCAAATGTTCTCA
* *
37863001 ACTATAGCAGATCTAGCTTTCAGATGTTTATACTGGAGCAGATCCAAGATGA-TTGGTATTCTTG
1 AATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
*
37863065 TGTTTACAAGAAACAAATCGAGGACATAGCAGAATTGACTCTCAAATGTTCTCA
66 TGTTTACAAGAAACAAATCGAGGACATAGAAG-ATTGACTCTCAAATGTTCTCA
* *
37863119 AATATAGCAGATCTAGCTTTCAGATGTTTATAGTGAAGCAGATCTAAGATGATTTGGTATTCTTG
1 AATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
* *
37863184 TGTTTACAAGGAACAAATCGAGGACATAGTAGATTGGACTCTCAAATGTTCTCA
66 TGTTTACAAGAAACAAATCGAGGACATAGAAGATT-GACTCTCAAATGTTCTCA
37863238 AA
1 AA
37863240 CAAACTCAAG
Statistics
Matches: 224, Mismatches: 12, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
118 111 0.50
119 113 0.50
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (118 bp):
AATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
TGTTTACAAGAAACAAATCGAGGACATAGAAGATTGACTCTCAAATGTTCTCA
Found at i:37863303 original size:83 final size:83
Alignment explanation
Indices: 37863164--37863404 Score: 367
Period size: 83 Copynumber: 2.9 Consensus size: 83
37863154 AAGCAGATCT
* * * *
37863164 AAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGTAGATTGGACTCTCAA
1 AAGATGATTTGGCATTCTTGTATTTACAAGAAACAAATCGAGGACATAGCAGATTGGACTCTCAA
37863229 ATGTTCTCAAACAAACTC
66 ATGTTCTCAAACAAACTC
* *
37863247 AAGATGATTTGGCATTCTTGTATTTATAAGAAACAAATCGAGGACATAGCAGATTGGACTCTCAG
1 AAGATGATTTGGCATTCTTGTATTTACAAGAAACAAATCGAGGACATAGCAGATTGGACTCTCAA
* *
37863312 ATGTTCTCGAACGAACTC
66 ATGTTCTCAAACAAACTC
* * *
37863330 AAGATGATTTGGCATTCTTATATTTACAAGAAACAAATCGAGGACGTAGCATATTTGG-CTCTCA
1 AAGATGATTTGGCATTCTTGTATTTACAAGAAACAAATCGAGGACATAGCAGA-TTGGACTCTCA
37863394 AATGTTCTCAA
65 AATGTTCTCAA
37863405 GACCTAAGAT
Statistics
Matches: 143, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
83 139 0.97
84 4 0.03
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (83 bp):
AAGATGATTTGGCATTCTTGTATTTACAAGAAACAAATCGAGGACATAGCAGATTGGACTCTCAA
ATGTTCTCAAACAAACTC
Found at i:37863469 original size:80 final size:81
Alignment explanation
Indices: 37863164--37863464 Score: 328
Period size: 83 Copynumber: 3.7 Consensus size: 81
37863154 AAGCAGATCT
* *
37863164 AAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAG-TAGATTGGACTCTCA
1 AAGATGATTTGGCATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCT-GATTGGACTCTCA
37863228 AATGTTCTCAA-ACAAACTC
65 AATGTTCTCAAGAC---CTC
* * * *
37863247 AAGATGATTTGGCATTCTTGTATTTATAAGAAACAAATCGAGGACATAGCAGATTGGACTCTCAG
1 AAGATGATTTGGCATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCTGATTGGACTCTCAA
*
37863312 ATGTTCTCGAACGAACTC
66 ATGTTCTC-AA-GACCTC
* * *
37863330 AAGATGATTTGGCATTCTTATATTTACAAGAAACAAATCGAGGACGTAGCAT-ATTTGG-CTCTC
1 AAGATGATTTGGCATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGC-TGA-TTGGACTCTC
37863393 AAATGTTCTCAAGACCT-
64 AAATGTTCTCAAGACCTC
* * * * *
37863410 AAGATGGTTTGGCA-TCTTTGTGCTTACAAGGAGCAAATCGAAGACGA-AGCTGATT
1 AAGATGATTTGGCATTC-TTGTGTTTACAAGAAACAAATCGAGGAC-ATAGCTGATT
37863465 TGGCTTTCAT
Statistics
Matches: 188, Mismatches: 21, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
79 5 0.03
80 39 0.21
81 4 0.02
82 2 0.01
83 131 0.70
84 6 0.03
86 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (81 bp):
AAGATGATTTGGCATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCTGATTGGACTCTCAA
ATGTTCTCAAGACCTC
Found at i:37865127 original size:19 final size:19
Alignment explanation
Indices: 37865103--37865152 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
37865093 AAATTTAGTC
37865103 CTATATTTATTTTATTATT
1 CTATATTTATTTTATTATT
*
37865122 CTATATATATTTTATTATT
1 CTATATTTATTTTATTATT
*
37865141 -TGT-TTTATTTTA
1 CTATATTTATTTTA
37865153 ATTTTACTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 8 0.29
18 2 0.07
19 18 0.64
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (19 bp):
CTATATTTATTTTATTATT
Found at i:37865193 original size:15 final size:15
Alignment explanation
Indices: 37865169--37865202 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
37865159 CTTCCATAAA
37865169 ATTA-TTTTATAAGT
1 ATTATTTTTATAAGT
*
37865183 ATTATTTTTATATGT
1 ATTATTTTTATAAGT
37865198 ATTAT
1 ATTAT
37865203 AATTGTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
ATTATTTTTATAAGT
Found at i:37865254 original size:18 final size:18
Alignment explanation
Indices: 37865182--37865307 Score: 91
Period size: 18 Copynumber: 6.9 Consensus size: 18
37865172 ATTTTATAAG
*
37865182 TATTATTTTTATATGTAT
1 TATTATTTTTATATATAT
*
37865200 TATAATTGTTTAT-TATA-
1 TATTATT-TTTATATATAT
* * *
37865217 TATTAATTCTCTCATA-AT
1 TATTATTTTTAT-ATATAT
37865235 TATTATTTTTATATATAT
1 TATTATTTTTATATATAT
*
37865253 TATTATATTTTTACATATAT
1 TA-T-TATTTTTATATATAT
*
37865273 TATATATTTATT-TATACA-
1 TAT-TATTT-TTATATATAT
*
37865291 TATTATTTTTACATATA
1 TATTATTTTTATATATA
37865308 AATTTTCATT
Statistics
Matches: 85, Mismatches: 14, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
16 5 0.06
17 18 0.21
18 27 0.32
19 17 0.20
20 18 0.21
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.60
Consensus pattern (18 bp):
TATTATTTTTATATATAT
Found at i:37865257 original size:21 final size:21
Alignment explanation
Indices: 37865233--37865297 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
37865223 TTCTCTCATA
37865233 ATTATTATTTTTATATATATT
1 ATTATTATTTTTATATATATT
*
37865254 ATTA-TATTTTTACATATATT
1 ATTATTATTTTTATATATATT
* *
37865274 ATATATT-TATTTATACATATT
1 AT-TATTATTTTTATATATATT
37865295 ATT
1 ATT
37865298 TTTACATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
20 18 0.47
21 19 0.50
22 1 0.03
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTATTATTTTTATATATATT
Found at i:37865290 original size:23 final size:24
Alignment explanation
Indices: 37865244--37865293 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
37865234 TTATTATTTT
*
37865244 TATATATATTATTATATTTTTACA
1 TATATATATTATTATATTTATACA
37865268 TATAT-TATATATT-TATTTATACA
1 TATATATAT-TATTATATTTATACA
37865291 TAT
1 TAT
37865294 TATTTTTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATATATTATTATATTTATACA
Found at i:37865669 original size:7 final size:7
Alignment explanation
Indices: 37865657--37865682 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
37865647 ATATTCTTGT
37865657 TATTATA
1 TATTATA
37865664 TATTATA
1 TATTATA
37865671 TATTATA
1 TATTATA
37865678 TATTA
1 TATTA
37865683 AATACTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTATA
Found at i:37867123 original size:50 final size:50
Alignment explanation
Indices: 37866951--37867134 Score: 222
Period size: 50 Copynumber: 3.8 Consensus size: 50
37866941 TAGGGTATAA
37866951 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-C-ATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAATCAAG
* * *
37867000 T--TGATGTCATGTCCCAGACATGGTCTTACACT-GACTATCGA-AATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTC-ACAATCAAG
* *
37867048 -GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-CG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA-ATCAAG
*
37867097 TGCCGATGCCATGCCCCAGACATGGTCTTACACTAGCT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
37867135 TACAATAACC
Statistics
Matches: 115, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
46 3 0.03
47 31 0.27
48 7 0.06
49 35 0.30
50 39 0.34
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (50 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAATCAAG
Found at i:37870106 original size:92 final size:93
Alignment explanation
Indices: 37869995--37870165 Score: 281
Period size: 92 Copynumber: 1.8 Consensus size: 93
37869985 GCCCATAAGT
* *
37869995 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
37870060 CGAGCT-GGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
37870087 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
37870152 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
37870166 CAAACATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 65 0.90
93 7 0.10
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:37870161 original size:46 final size:46
Alignment explanation
Indices: 37869987--37870161 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
37869977 TGTAACCCGC
* * *
37869987 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * *
37870033 CCATAAGTGAACTCAGACTCAACTCAACGAGCT-GGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
37870082 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
37870125 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
37870162 TGCCCAAACA
Statistics
Matches: 107, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
45 2 0.02
46 84 0.79
47 3 0.03
48 1 0.01
49 6 0.06
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:37876052 original size:46 final size:46
Alignment explanation
Indices: 37875759--37876075 Score: 179
Period size: 46 Copynumber: 6.7 Consensus size: 46
37875749 CGTATAATGA
* *
37875759 CGATGCCATGTCCCAGATATGGTCTTACACTAG--CTCATCCATC-AAGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCAT-C-TCGAAGC
**
37875806 CGATGTCATGTCCCAGACATGGTCTTACACTTA-CTAC-CGAAATCG-AGAC
1 CGATG-CATGTCCCAGACAT-GTCTTACAC-TAGC-ACTC-ATCTCGAAG-C
* * * * * * *
37875855 CAACGCCATGTCCCAGAAATGGCCTTACACTAGCTCTCACATATCCGTA-C
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACT--CATCT-CGAAGC
* * *
37875905 CGATGCCATGTCCCAGGCATTGTCTTACACT-G-ACACATCTCGTAGC
1 CGATG-CATGTCCCAGACA-TGTCTTACACTAGCACTCATCTCGAAGC
* * * *
37875951 CGATGCATGTCCTAGACATGTCTTACACTGGC-TTACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACT-CATCTCGAAGC
* *
37875997 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTC-AATC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCGAAGC
**
37876042 CGATGCCATGTCTTAGACATGGTCTTACACTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGC
37876076 TCACAATAAC
Statistics
Matches: 215, Mismatches: 34, Indels: 42
0.74 0.12 0.14
Matches are distributed among these distances:
44 11 0.05
45 23 0.11
46 66 0.31
47 42 0.20
48 10 0.05
49 28 0.13
50 30 0.14
51 4 0.02
52 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCGAAGC
Found at i:37876059 original size:92 final size:93
Alignment explanation
Indices: 37875904--37876072 Score: 229
Period size: 92 Copynumber: 1.8 Consensus size: 93
37875894 CATATCCGTA
* *
37875904 CCGATGCCATGTCCCAGGCATTGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCTAGACA
1 CCGATGCCATGTCCCAGACATTGTCTTACACTGACACATCTCGAAGCCGATGCATGTCCTAGACA
37875969 T-GTCTTACACTGGCTTACATCTCGAGG
66 TGGTCTTACACTGGCTTACATCTCGAGG
* * * *
37875996 CCGATG-CATGTCCCAGACA-TGTCTTACACTAGCACTCGTCTC-AATCCGATGCCATGTCTTAG
1 CCGATGCCATGTCCCAGACATTGTCTTACACT-G-ACACATCTCGAAGCCGATG-CATGTCCTAG
37876058 ACATGGTCTTACACT
63 ACATGGTCTTACACT
37876073 AGCTCACAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
90 11 0.16
91 20 0.30
92 26 0.39
93 10 0.15
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (93 bp):
CCGATGCCATGTCCCAGACATTGTCTTACACTGACACATCTCGAAGCCGATGCATGTCCTAGACA
TGGTCTTACACTGGCTTACATCTCGAGG
Found at i:37878254 original size:26 final size:26
Alignment explanation
Indices: 37878218--37878271 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
37878208 GACTTATTAG
37878218 ATTGTTTACCAAAGAAAATTACAAAT
1 ATTGTTTACCAAAGAAAATTACAAAT
37878244 ATTGTTTACCAAAGAAAATTACAAAT
1 ATTGTTTACCAAAGAAAATTACAAAT
37878270 AT
1 AT
37878272 GCATAAACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.31
Consensus pattern (26 bp):
ATTGTTTACCAAAGAAAATTACAAAT
Found at i:37880078 original size:17 final size:17
Alignment explanation
Indices: 37880056--37880096 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
37880046 AAAAGATTAA
*
37880056 CATACCTGTGCCAGACT
1 CATACCCGTGCCAGACT
**
37880073 CATACCCGTGCTGGACT
1 CATACCCGTGCCAGACT
37880090 CATACCC
1 CATACCC
37880097 ATATCTTTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.22, C:0.39, G:0.17, T:0.22
Consensus pattern (17 bp):
CATACCCGTGCCAGACT
Found at i:37890752 original size:27 final size:27
Alignment explanation
Indices: 37890715--37890919 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
37890705 TAAATTGTAC
37890715 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
37890742 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
37890769 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37890795 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
37890823 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
37890851 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37890878 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37890905 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37890920 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37890854 original size:109 final size:108
Alignment explanation
Indices: 37890716--37890919 Score: 320
Period size: 109 Copynumber: 1.9 Consensus size: 108
37890706 AAATTGTACA
* *
37890716 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
37890781 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
*
37890824 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
37890889 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
37890920 GACTCAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 17 0.20
109 70 0.80
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:37898702 original size:27 final size:27
Alignment explanation
Indices: 37898669--37898873 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
37898659 TAAATTGTAC
37898669 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
37898696 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
37898723 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37898749 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
37898777 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
37898805 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
37898832 AGCACTAAGTGTGCGAGTTGA-TGATAT
1 AGCACTAAGTGTGCGATTTGACT-ATGT
*
37898859 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37898874 GACTCAATAT
Statistics
Matches: 155, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 131 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37902169 original size:40 final size:40
Alignment explanation
Indices: 37902120--37902322 Score: 131
Period size: 38 Copynumber: 5.2 Consensus size: 40
37902110 CTAAGATCCG
*
37902120 AGGCATTTGTGCGAGATAC-AAGTTCCGGGTTAAGCCCCGA
1 AGGCATTTGTGCGAGATACTAA-ATCCGGGTTAAGCCCCGA
* *
37902160 AGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCG-
1 AGGCATTTGTGCGAGATACTAAATCCGGGTTAAGCCCCGA
* ** * *
37902199 -GGCAATTCGTG-GAG-TTGTTAATCCGGGTTAAG-TCCG-
1 AGGC-ATTTGTGCGAGATACTAAATCCGGGTTAAGCCCCGA
* * * *
37902235 AGGCATTCGTTGCGAGTTA-TTAATCGCGGGTTAAGTCCCGA
1 AGGCATTTG-TGCGAGATACTAAATC-CGGGTTAAGCCCCGA
* * * * *
37902276 AGGCA-TTG-GTGAGTTACTAAA-CACGGGCTATGTCCCGA
1 AGGCATTTGTGCGAGATACTAAATC-CGGGTTAAGCCCCGA
37902314 AGGCATTTG
1 AGGCATTTG
37902323 AACGAGGAGC
Statistics
Matches: 135, Mismatches: 17, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
36 8 0.06
37 20 0.15
38 41 0.30
39 21 0.16
40 38 0.28
41 7 0.05
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
AGGCATTTGTGCGAGATACTAAATCCGGGTTAAGCCCCGA
Found at i:37902228 original size:37 final size:39
Alignment explanation
Indices: 37902143--37902282 Score: 146
Period size: 37 Copynumber: 3.6 Consensus size: 39
37902133 AGATACAAGT
* * * * *
37902143 TCCGGGTTAAGCCCCGAAGGCCTTTG-TGCGAGATACTAAA
1 TCCGGGTTAAGTCCCG-AGGCATTCGTTGCGAGTTA-TTAA
*
37902183 TCCGGGTTAAGTCCCG-GGCAATTCG-TG-GAGTTGTTAA
1 TCCGGGTTAAGTCCCGAGGC-ATTCGTTGCGAGTTATTAA
37902220 TCCGGGTTAAGT-CCGAGGCATTCGTTGCGAGTTATTAA
1 TCCGGGTTAAGTCCCGAGGCATTCGTTGCGAGTTATTAA
37902258 TCGCGGGTTAAGTCCCGAAGGCATT
1 TC-CGGGTTAAGTCCCG-AGGCATT
37902283 GGTGAGTTAC
Statistics
Matches: 86, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
36 8 0.09
37 20 0.23
38 18 0.21
39 15 0.17
40 18 0.21
41 7 0.08
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAGGCATTCGTTGCGAGTTATTAA
Found at i:37902290 original size:38 final size:38
Alignment explanation
Indices: 37902143--37902320 Score: 152
Period size: 38 Copynumber: 4.6 Consensus size: 38
37902133 AGATACAAGT
* * * *
37902143 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTA-TTAA
*
37902183 TCCGGGTTAAGTCCCG--GGCAATTCGTG-GAGTTGTTAA
1 TCCGGGTTAAGTCCCGAAGGC-ATT-GTGCGAGTTATTAA
37902220 TCCGGGTTAAGT-CCG-AGGCATTCGTTGCGAGTTATTAA
1 TCCGGGTTAAGTCCCGAAGGCATT-G-TGCGAGTTATTAA
* *
37902258 TCGCGGGTTAAGTCCCGAAGGCATTG-GTGAGTTACTAA
1 TC-CGGGTTAAGTCCCGAAGGCATTGTGCGAGTTATTAA
* * *
37902296 ACACGGGCTATGTCCCGAAGGCATT
1 TC-CGGGTTAAGTCCCGAAGGCATT
37902321 TGAACGAGGA
Statistics
Matches: 118, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
36 8 0.07
37 21 0.18
38 50 0.42
39 13 0.11
40 19 0.16
41 7 0.06
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.26
Consensus pattern (38 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTATTAA
Found at i:37907550 original size:39 final size:39
Alignment explanation
Indices: 37907498--37907706 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
37907488 GGACTAAGAT
* *
37907498 CCGAAGGCATTTGTGCGAGATACAAGTTCCGGGTTAAG-C
1 CCGAAGGCATTCGTGCGAGATACAA-ATCCGGGTTAAGTC
* *
37907537 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* **
37907577 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* *
37907617 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
37907657 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
37907696 CCGAAGGCATT
1 CCGAAGGCATT
37907707 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
39 66 0.43
40 86 0.57
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:37907652 original size:80 final size:79
Alignment explanation
Indices: 37907498--37907706 Score: 269
Period size: 79 Copynumber: 2.6 Consensus size: 79
37907488 GGACTAAGAT
* * * *
37907498 CCGAAGGCATTTGTGCGAGATAC-AAGTTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCA-TTGTGCGAGTTACTAA-ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACT
37907561 AAATCCGGGTTAAGTC
64 AAATCCGGGTTAAGTC
** * *
37907577 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTA
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTA
37907642 AATCCGGGTTAAGTC
65 AATCCGGGTTAAGTC
* * * *
37907657 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
37907707 TGAACGAGGA
Statistics
Matches: 113, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
78 2 0.02
79 61 0.54
80 50 0.44
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAA
ATCCGGGTTAAGTC
Found at i:37907726 original size:79 final size:80
Alignment explanation
Indices: 37907446--37907741 Score: 221
Period size: 79 Copynumber: 3.7 Consensus size: 80
37907436 TGAATGCTGT
* ** * * * **
37907446 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * **
37907509 TGTGCGAGATAC-AAGTT
64 CGTGCGAGTTACTAA-AA
* * * **
37907526 CCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
** *
37907589 GTGCGAGTTGTTAAAT
65 GTGCGAGTTACTAAAA
* ** * *
37907605 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
37907669 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
37907684 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
37907742 TATGTGATTT
Statistics
Matches: 182, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
78 17 0.09
79 99 0.54
80 66 0.36
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:37907726 original size:119 final size:119
Alignment explanation
Indices: 37907481--37907741 Score: 287
Period size: 119 Copynumber: 2.2 Consensus size: 119
37907471 GCTAAGTGAA
** * *
37907481 TATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACAAGTTCCGGGTTAAGCCCGAAGGC
1 TATATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGATACAAGATCCGGGTTAAGCCCGAAGGC
* * * ** ** *
37907545 CTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
65 CATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGC
* * *
37907600 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA-ATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATA-CAAGATCCGGGTTAAG-CCCGAAGG
* * * *
37907664 -CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGC
64 CCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGC
*
37907719 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
37907742 TATGTGATTT
Statistics
Matches: 118, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
118 16 0.14
119 92 0.78
120 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (119 bp):
TATATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACAAGATCCGGGTTAAGCCCGAAGGCC
ATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGC
Found at i:37909922 original size:14 final size:14
Alignment explanation
Indices: 37909880--37909924 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
37909870 TTAAAGAAGC
37909880 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
37909894 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
37909907 AACTCATTTAATTA
1 AACTCATTAAATTA
37909921 AACT
1 AACT
37909925 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:37919860 original size:19 final size:19
Alignment explanation
Indices: 37919815--37919860 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
37919805 ATTAACACAC
*
37919815 AATTAATTAAAATATAACT
1 AATTAATAAAAATATAACT
*
37919834 -ATTCATAAAAATCATAA-T
1 AATTAATAAAAAT-ATAACT
37919852 AATTAATAA
1 AATTAATAA
37919861 TTAAACAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.35
Consensus pattern (19 bp):
AATTAATAAAAATATAACT
Found at i:37925589 original size:27 final size:27
Alignment explanation
Indices: 37925551--37925755 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
37925541 TAAATTGTAC
37925551 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
37925578 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
37925605 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37925631 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
37925659 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
37925687 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37925714 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37925741 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37925756 GACTCAATAT
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 132 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37928245 original size:20 final size:20
Alignment explanation
Indices: 37928222--37928269 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
37928212 AGCTCCGTCC
37928222 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** *
37928242 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
37928262 AGCTCAAC
1 AGCTCAAC
37928270 CGAGCTTACT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:37932144 original size:30 final size:30
Alignment explanation
Indices: 37932059--37932155 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
37932049 TAAACTAAAA
* *
37932059 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
37932089 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
37932119 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
37932148 ATGAGCTA
1 -TGAGCTA
37932156 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:37932383 original size:20 final size:19
Alignment explanation
Indices: 37932338--37932383 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
37932328 TAGGCTCGGA
* *
37932338 TTAGCTCGTTTGAGCTTAT
1 TTAGCTCGCTTGAGCTAAT
37932357 TTCAGCTCGCTTGAGCTCAAT
1 TT-AGCTCGCTTGAGCT-AAT
37932378 TTAGCT
1 TTAGCT
37932384 ACTTTTTAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 17 0.74
21 4 0.17
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.41
Consensus pattern (19 bp):
TTAGCTCGCTTGAGCTAAT
Found at i:37939005 original size:16 final size:17
Alignment explanation
Indices: 37938984--37939016 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
37938974 TTGAAAATCA
37938984 GGCCAAATTG-TAAAGT
1 GGCCAAATTGTTAAAGT
*
37939000 GGCCAAGTTGTTAAAGT
1 GGCCAAATTGTTAAAGT
37939017 TTATTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (17 bp):
GGCCAAATTGTTAAAGT
Found at i:37948858 original size:15 final size:15
Alignment explanation
Indices: 37948830--37948863 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
37948820 TGTGATATCT
*
37948830 ATTCTGCTTGTGAGA
1 ATTCTACTTGTGAGA
*
37948845 ATTCTACTTTTGAGA
1 ATTCTACTTGTGAGA
37948860 ATTC
1 ATTC
37948864 CTACAGGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.44
Consensus pattern (15 bp):
ATTCTACTTGTGAGA
Found at i:37949522 original size:20 final size:20
Alignment explanation
Indices: 37949499--37949558 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
37949489 AGCTCCAATC
37949499 AGCTCACTTGAGCTCGATTT
1 AGCTCACTTGAGCTCGATTT
**
37949519 AGCTTGCTTGAGCTCGAATTT
1 AGCTCACTTGAGCTCG-ATTT
* *
37949540 AGCTCATTTCAGCTC-ATTT
1 AGCTCACTTGAGCTCGATTT
37949559 CTTCTTCATT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
19 4 0.12
20 14 0.42
21 15 0.45
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.38
Consensus pattern (20 bp):
AGCTCACTTGAGCTCGATTT
Found at i:37949541 original size:21 final size:20
Alignment explanation
Indices: 37949505--37949543 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
37949495 AATCAGCTCA
37949505 CTTGAGCTCGATTTAGCTTG
1 CTTGAGCTCGATTTAGCTTG
37949525 CTTGAGCTCGAATTTAGCT
1 CTTGAGCTCG-ATTTAGCT
37949544 CATTTCAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (20 bp):
CTTGAGCTCGATTTAGCTTG
Found at i:37956246 original size:27 final size:27
Alignment explanation
Indices: 37956198--37956356 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
37956188 GCGAGGCTGC
* *
37956198 CAGATATTGTGACGA-AGTCACCAGATA
1 CAGATATTGTGGC-ATAGCCACCAGATA
* *
37956225 CAGATATTGTGGTACAGCCACCAGA-A
1 CAGATATTGTGGCATAGCCACCAGATA
*
37956251 CAGATATATGTGGCAAAGCCACCAGAT-
1 CAGATAT-TGTGGCATAGCCACCAGATA
* *
37956278 TAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCATAGCCACCAGATA
*
37956305 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCATAGCCACCAGATA
37956332 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCATAGCCACCAG
37956357 GACGCTTCCT
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
26 11 0.10
27 97 0.87
28 4 0.04
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCATAGCCACCAGATA
Found at i:37956357 original size:54 final size:54
Alignment explanation
Indices: 37956198--37956359 Score: 229
Period size: 54 Copynumber: 3.0 Consensus size: 54
37956188 GCGAGGCTGC
* * * * * *
37956198 CAGATAT-TGTGACGAAGTCACCAGATACAGAT-ATTGTGGTACAGCCACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
*
37956251 CAGATATATGTGGCAAAGCCACCAGATTAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
*
37956305 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
37956359 C
1 C
37956360 GCTTCCTCCA
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 11 0.11
54 87 0.89
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (54 bp):
CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:37958401 original size:30 final size:30
Alignment explanation
Indices: 37958316--37958412 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
37958306 TAAACTAAAA
* *
37958316 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
37958346 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
37958376 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
37958405 ATGAGCTA
1 -TGAGCTA
37958413 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:37960590 original size:12 final size:12
Alignment explanation
Indices: 37960575--37960605 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
37960565 TTCTTTTTGC
37960575 TTTTCAAAGGCT
1 TTTTCAAAGGCT
37960587 TTTTCAAAGGCT
1 TTTTCAAAGGCT
37960599 TTTTCAA
1 TTTTCAA
37960606 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:37960663 original size:5 final size:5
Alignment explanation
Indices: 37960653--37960709 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
37960643 CTCTTGCCTC
*
37960653 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
37960700 TCTTT TCTTT
1 TCTTT TCTTT
37960710 GTTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:37960693 original size:15 final size:14
Alignment explanation
Indices: 37960653--37960709 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
37960643 CTCTTGCCTC
*
37960653 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
37960668 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
37960683 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
37960700 TCTTTTCTTT
1 TCTTTTCTTT
37960710 GTTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:37960710 original size:21 final size:21
Alignment explanation
Indices: 37960653--37960720 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
37960643 CTCTTGCCTC
* *
37960653 TCTTTTCTTTT-TATTTCATTT
1 TCTTTTCTTTTCT-TTGCTTTT
*
37960674 TCTTTT-TCTTCTTTTGCTTTT
1 TCTTTTCTTTTC-TTTGCTTTT
37960695 TCTTTTCTTTTCTTTG-TTTT
1 TCTTTTCTTTTCTTTGCTTTT
37960715 CTCTTT
1 -TCTTT
37960721 ACAAAAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 7 0.18
21 27 0.69
22 5 0.13
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (21 bp):
TCTTTTCTTTTCTTTGCTTTT
Found at i:37963360 original size:30 final size:30
Alignment explanation
Indices: 37963275--37963362 Score: 106
Period size: 30 Copynumber: 2.9 Consensus size: 30
37963265 TAAACTAAAA
*
37963275 TGAGCTAA-GCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGC-TTAGCTCGTGAGCTGAAGT
* * * * *
37963305 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGCTTAGCTCGTGAGCTGAAGT
37963335 TGAGCTAAGGCTTAGCTCGTGAGCTGAA
1 TGAGCTAAGGCTTAGCTCGTGAGCTGAA
37963363 TATGAGTTAG
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
30 44 0.96
31 2 0.04
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (30 bp):
TGAGCTAAGGCTTAGCTCGTGAGCTGAAGT
Found at i:37965105 original size:15 final size:15
Alignment explanation
Indices: 37965085--37965149 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
37965075 GTATCTTGGG
37965085 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
37965100 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
37965115 TTT-TTCTA-TCTTGGA
1 TTTCTT-TATTC-TGGA
* *
37965130 TTTATTTATTC-GGT
1 TTTCTTTATTCTGGA
37965144 TTTCTT
1 TTTCTT
37965150 GTTATCTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
14 11 0.26
15 27 0.64
16 4 0.10
ACGTcount: A:0.11, C:0.12, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:37965117 original size:30 final size:31
Alignment explanation
Indices: 37965081--37965149 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
37965071 TATCGTATCT
*
37965081 TGGGTTTCTT-TAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTTCTATCT-TGGATTTATTTATTC
37965111 TGGGTTT-TTCTATCTTGGATTTATTTATTC
1 TGGGTTTCTTCTATCTTGGATTTATTTATTC
*
37965141 -GGTTTTCTT
1 TGGGTTTCTT
37965150 GTTATCTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 7 0.21
30 26 0.76
31 1 0.03
ACGTcount: A:0.10, C:0.12, G:0.17, T:0.61
Consensus pattern (31 bp):
TGGGTTTCTTCTATCTTGGATTTATTTATTC
Found at i:37967425 original size:50 final size:50
Alignment explanation
Indices: 37967287--37967426 Score: 181
Period size: 50 Copynumber: 2.8 Consensus size: 50
37967277 GAGGTCGCAC
* * * * *
37967287 GTGTAGTACTACGTGCAGGCTACTATGCGTACCCAAAAACTGTGATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTA-CCAGATAGTGAGATCACGT
* * ** *
37967338 GTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATAGTGAGGTCACGT
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTGAGATCACGT
37967388 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
37967427 CTTCGGCTAC
Statistics
Matches: 75, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 47 0.63
51 28 0.37
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (50 bp):
GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTGAGATCACGT
Found at i:37970391 original size:12 final size:11
Alignment explanation
Indices: 37970350--37970390 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
37970340 AAAAAATTAG
37970350 AAAGAAAAAGA
1 AAAGAAAAAGA
37970361 AAAGAAAACAGA
1 AAAGAAAA-AGA
*
37970373 AAAGAATAAAGG
1 AAAGAA-AAAGA
37970385 AAAGAA
1 AAAGAA
37970391 TGAGGTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 8 0.30
12 17 0.63
13 2 0.07
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (11 bp):
AAAGAAAAAGA
Found at i:37973372 original size:39 final size:39
Alignment explanation
Indices: 37973318--37973392 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
37973308 GTATCGTTCA
37973318 ATTCACTTTTGAAATGAAGTTGATGGAAAAATAGGATGG
1 ATTCACTTTTGAAATGAAGTTGATGGAAAAATAGGATGG
37973357 ATTCACTTTTGAAATGAAGTTGATGGAAAAATAGGA
1 ATTCACTTTTGAAATGAAGTTGATGGAAAAATAGGA
37973393 CGGAAGCTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (39 bp):
ATTCACTTTTGAAATGAAGTTGATGGAAAAATAGGATGG
Found at i:37975267 original size:14 final size:14
Alignment explanation
Indices: 37975220--37975267 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
37975210 GTACGAATGG
*
37975220 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
37975234 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
37975248 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
37975262 ATTGGT
1 AATGGT
37975268 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:37980826 original size:20 final size:20
Alignment explanation
Indices: 37980801--37980839 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
37980791 ATAAATCACT
37980801 TTTTTTCGATTTATTTTTTA
1 TTTTTTCGATTTATTTTTTA
*
37980821 TTTTTTTGATTTATTTTTT
1 TTTTTTCGATTTATTTTTT
37980840 CGATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTTTCGATTTATTTTTTA
Found at i:37980846 original size:20 final size:20
Alignment explanation
Indices: 37980802--37980856 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
37980792 TAAATCACTT
**
37980802 TTTTTCGATTTATTTTTTATT
1 TTTTT-GATTTATTTTTTAGA
*
37980823 TTTTTGATTTATTTTTTCGA
1 TTTTTGATTTATTTTTTAGA
*
37980843 TTTTTTATTT-TTTT
1 TTTTTGATTTATTTT
37980857 AACTTGTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 4 0.13
20 21 0.70
21 5 0.17
ACGTcount: A:0.13, C:0.04, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTTTGATTTATTTTTTAGA
Found at i:37985789 original size:21 final size:21
Alignment explanation
Indices: 37985766--37985836 Score: 76
Period size: 21 Copynumber: 3.3 Consensus size: 21
37985756 AAGAGAAAAC
37985766 AAAGAAAAGAAAAGAAAAAGCA
1 AAAGAAAAGAAAAGAAAAAG-A
37985788 AAAGCAAAAG--AAGAAAAAGAA
1 AAAG-AAAAGAAAAGAAAAAG-A
*
37985809 AAAGAAAA-AGAAATAAAAAGA
1 AAAGAAAAGA-AAAGAAAAAGA
37985830 AAAGAAA
1 AAAGAAA
37985837 GGCAAGAGGC
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
20 4 0.09
21 22 0.51
22 12 0.28
23 5 0.12
ACGTcount: A:0.79, C:0.03, G:0.17, T:0.01
Consensus pattern (21 bp):
AAAGAAAAGAAAAGAAAAAGA
Found at i:37985790 original size:6 final size:5
Alignment explanation
Indices: 37985766--37985836 Score: 65
Period size: 6 Copynumber: 13.4 Consensus size: 5
37985756 AAGAGAAAAC
*
37985766 AAAGA AAAGA AAAGAA AAAGCA AAAGCA AAAGA AGA-A AAAGAA AAAGAA
1 AAAGA AAAGA AAAG-A AAAG-A AAAG-A AAAGA AAAGA AAAG-A AAAG-A
37985815 AAAGA AATA-A AAAGA AAAGA AA
1 AAAGA AA-AGA AAAGA AAAGA AA
37985837 GGCAAGAGGC
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
4 4 0.07
5 26 0.45
6 28 0.48
ACGTcount: A:0.79, C:0.03, G:0.17, T:0.01
Consensus pattern (5 bp):
AAAGA
Found at i:37985795 original size:27 final size:26
Alignment explanation
Indices: 37985755--37985836 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 26
37985745 ACATTCTTGT
37985755 AAAGAGAAAA-CAAAGAAAAGAAAAGAA
1 AAAGA-AAAAGCAAA-AAAAGAAAAGAA
* *
37985782 AAAGCAAAAGCAAAAGAAGAAAAAGAA
1 AAAGAAAAAGCAAAAAAAG-AAAAGAA
*
37985809 AAAGAAAAAGAAATAAAAAGAAAAGAA
1 AAAGAAAAAGCAA-AAAAAGAAAAGAA
37985836 A
1 A
37985837 GGCAAGAGGC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
26 8 0.17
27 34 0.72
28 5 0.11
ACGTcount: A:0.78, C:0.04, G:0.17, T:0.01
Consensus pattern (26 bp):
AAAGAAAAAGCAAAAAAAGAAAAGAA
Found at i:37985796 original size:12 final size:10
Alignment explanation
Indices: 37985766--37985836 Score: 65
Period size: 10 Copynumber: 6.7 Consensus size: 10
37985756 AAGAGAAAAC
37985766 AAAGAAAAGA
1 AAAGAAAAGA
37985776 AAAGAAAAAGCA
1 AAAG-AAAAG-A
37985788 AAAGCAAAAGA
1 AAAG-AAAAGA
*
37985799 AGA-AAAAGAA
1 AAAGAAAAG-A
37985809 AAAGAAAAAGA
1 AAAG-AAAAGA
37985820 AATA-AAAAGA
1 AA-AGAAAAGA
37985830 AAAGAAA
1 AAAGAAA
37985837 GGCAAGAGGC
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
9 6 0.12
10 18 0.35
11 11 0.22
12 16 0.31
ACGTcount: A:0.79, C:0.03, G:0.17, T:0.01
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:37985811 original size:15 final size:15
Alignment explanation
Indices: 37985766--37985836 Score: 65
Period size: 15 Copynumber: 4.5 Consensus size: 15
37985756 AAGAGAAAAC
37985766 AAAGAAAAGAAAAGAA
1 AAAGAAAA-AAAAGAA
37985782 AAAGCAAAAGCAAAAGAA
1 AAAG-AAAA--AAAAGAA
*
37985800 GAAA-AAGAAAAAGAA
1 -AAAGAAAAAAAAGAA
37985815 AAAGAAATAAAAAG-A
1 AAAGAAA-AAAAAGAA
37985830 AAAGAAA
1 AAAGAAA
37985837 GGCAAGAGGC
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
14 3 0.06
15 17 0.36
16 10 0.21
17 7 0.15
18 7 0.15
19 3 0.06
ACGTcount: A:0.79, C:0.03, G:0.17, T:0.01
Consensus pattern (15 bp):
AAAGAAAAAAAAGAA
Found at i:37985912 original size:11 final size:12
Alignment explanation
Indices: 37985882--37985912 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
37985872 TTGAGAGAAC
37985882 TTGAAAAAGCCT
1 TTGAAAAAGCCT
*
37985894 TTGAAAAATCCT
1 TTGAAAAAGCCT
37985906 TTGAAAA
1 TTGAAAA
37985913 GCAAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:37985923 original size:12 final size:12
Alignment explanation
Indices: 37985915--37985939 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37985905 TTTGAAAAGC
37985915 AAAAAGAAAATG
1 AAAAAGAAAATG
37985927 AAAAAGAAAATG
1 AAAAAGAAAATG
37985939 A
1 A
37985940 GATTGAAAAA
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:37985936 original size:18 final size:18
Alignment explanation
Indices: 37985909--37985964 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
37985899 AAATCCTTTG
37985909 AAAAGCAAAAAGAAAATGA
1 AAAAG-AAAAAGAAAATGA
* * *
37985928 AAAAGAAAATGAGATTGA
1 AAAAGAAAAAGAAAATGA
* *
37985946 AAAAGAGAACGAAAA-GA
1 AAAAGAAAAAGAAAATGA
37985963 AA
1 AA
37985965 TTTGAGAGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.20, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAATGA
Found at i:37985949 original size:30 final size:31
Alignment explanation
Indices: 37985915--37985996 Score: 105
Period size: 30 Copynumber: 2.7 Consensus size: 31
37985905 TTTGAAAAGC
*
37985915 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
37985945 AAAAAGAGAACG-AAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
*
37985975 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
37985997 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 8 0.19
30 26 0.60
31 9 0.21
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.12
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:37986850 original size:22 final size:22
Alignment explanation
Indices: 37986820--37986863 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
37986810 TTTGGTATTT
37986820 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
37986842 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
37986864 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:37991825 original size:23 final size:22
Alignment explanation
Indices: 37991773--37991825 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
37991763 TCCACGTCTT
*
37991773 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
37991795 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
37991818 TTTCTTTT
1 TTTCTTTT
37991826 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:37994178 original size:4 final size:4
Alignment explanation
Indices: 37994164--37994196 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
37994154 CATAAAAATT
37994164 TAAA CTAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA TAAA TAAA TAAA TAAA TAAA TAAA
37994197 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:37996236 original size:12 final size:12
Alignment explanation
Indices: 37996219--37996245 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
37996209 AAACTGTATG
37996219 CAATTTTTTTTT
1 CAATTTTTTTTT
37996231 CAATTTTTTTTT
1 CAATTTTTTTTT
37996243 CAA
1 CAA
37996246 ACTCTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:37996586 original size:22 final size:22
Alignment explanation
Indices: 37996556--37996599 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
37996546 TTTGGTATTT
37996556 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
37996578 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
37996600 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:37998257 original size:22 final size:22
Alignment explanation
Indices: 37998227--37998270 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
37998217 TTTGGTATTT
37998227 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
37998249 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
37998271 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:38003412 original size:20 final size:20
Alignment explanation
Indices: 38003389--38003435 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
38003379 GGGTTAAGAT
*
38003389 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
38003409 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
38003429 TGAGCTG
1 TGAGCTG
38003436 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:38005287 original size:12 final size:12
Alignment explanation
Indices: 38005272--38005302 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
38005262 TTCTTTTTGC
38005272 TTTTCAAAGGCT
1 TTTTCAAAGGCT
38005284 TTTTCAAAGGCT
1 TTTTCAAAGGCT
38005296 TTTTCAA
1 TTTTCAA
38005303 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:38005360 original size:5 final size:5
Alignment explanation
Indices: 38005350--38005406 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
38005340 CTCTTGCCTC
*
38005350 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTTT TCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TC-TTT TC-TTT TCTTT
38005397 TCTTT TCTTT
1 TCTTT TCTTT
38005407 ATTTTCTCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
4 4 0.09
5 26 0.58
6 14 0.31
7 1 0.02
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:38007619 original size:23 final size:25
Alignment explanation
Indices: 38007593--38007638 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
38007583 TTGTTGAGAG
38007593 AAGA-ATTT-TCTTGAGTTTTCTCC
1 AAGATATTTCTCTTGAGTTTTCTCC
*
38007616 AAGATTTTTCTCTTGAGTTTTCT
1 AAGATATTTCTCTTGAGTTTTCT
38007639 TTGAAGTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 3 0.15
25 13 0.65
ACGTcount: A:0.20, C:0.15, G:0.13, T:0.52
Consensus pattern (25 bp):
AAGATATTTCTCTTGAGTTTTCTCC
Found at i:38013029 original size:24 final size:23
Alignment explanation
Indices: 38012997--38013054 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
38012987 AGACCGTATG
38012997 CAATTTTTTTTCAAATTTTTTTTT
1 CAATTTTTTTTC-AATTTTTTTTT
38013021 CAATTTTTTTTCAATTTTTTTTT
1 CAATTTTTTTTCAATTTTTTTTT
*
38013044 CGATTTTTTTT
1 CAATTTTTTTT
38013055 GAATCTACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 21 0.64
24 12 0.36
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (23 bp):
CAATTTTTTTTCAATTTTTTTTT
Found at i:38013042 original size:11 final size:11
Alignment explanation
Indices: 38012997--38013054 Score: 80
Period size: 11 Copynumber: 5.0 Consensus size: 11
38012987 AGACCGTATG
38012997 CAATTTTTTTT
1 CAATTTTTTTT
38013008 CAAATTTTTTTTT
1 C-AA-TTTTTTTT
38013021 CAATTTTTTTT
1 CAATTTTTTTT
38013032 CAATTTTTTTTT
1 CAA-TTTTTTTT
*
38013044 CGATTTTTTTT
1 CAATTTTTTTT
38013055 GAATCTACAA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
11 20 0.47
12 14 0.33
13 9 0.21
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (11 bp):
CAATTTTTTTT
Found at i:38021285 original size:20 final size:20
Alignment explanation
Indices: 38021262--38021326 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
38021252 AAGCTCAAAC
*
38021262 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGTGAGCTAAATT
38021282 GAGCTCAAA-TGAGCTAAATT
1 GAGCT-AAAGTGAGCTAAATT
* * * *
38021302 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGTGAGCTAAATT
38021322 GAGCT
1 GAGCT
38021327 GGGAAAAACT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
19 1 0.03
20 33 0.89
21 3 0.08
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (20 bp):
GAGCTAAAGTGAGCTAAATT
Found at i:38021326 original size:30 final size:31
Alignment explanation
Indices: 38021253--38021326 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 31
38021243 ACTTAAGCCA
38021253 AGCTCAAA-CGAGCTAAAGTAAGCTAAATTG
1 AGCTCAAATCGAGCTAAAGTAAGCTAAATTG
* *
38021283 AGCTCAAAT-GAGCTAAATTAAGCT-CATGTG
1 AGCTCAAATCGAGCTAAAGTAAGCTAAAT-TG
38021313 AGCT-AAATCGAGCT
1 AGCTCAAATCGAGCT
38021327 GGGAAAAACT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
29 6 0.15
30 33 0.85
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (31 bp):
AGCTCAAATCGAGCTAAAGTAAGCTAAATTG
Found at i:38029072 original size:23 final size:22
Alignment explanation
Indices: 38029020--38029072 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
38029010 TCCACGTCTT
*
38029020 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
38029042 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
38029065 TTTCTTTT
1 TTTCTTTT
38029073 TCAATCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:38032199 original size:20 final size:19
Alignment explanation
Indices: 38032176--38032240 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
38032166 AAGCTCAAAC
38032176 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
38032196 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
38032216 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
38032236 GAGCT
1 GAGCT
38032241 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:38034107 original size:30 final size:30
Alignment explanation
Indices: 38034073--38034170 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 30
38034063 AGCTCACTCC
38034073 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
** * * * * *
38034103 TAGCTCAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* * *
38034133 CAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
38034163 TAGCTCAT
1 TAGCTCAT
38034171 TTTAGTTTAA
Statistics
Matches: 50, Mismatches: 16, Indels: 3
0.72 0.23 0.04
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:38036907 original size:6 final size:6
Alignment explanation
Indices: 38036896--38036922 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
38036886 ATATTTTATA
38036896 TGTATG TGTATG TGTATG TGTATG TGT
1 TGTATG TGTATG TGTATG TGTATG TGT
38036923 TTTTATTGTA
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:0.33, T:0.52
Consensus pattern (6 bp):
TGTATG
Found at i:38039341 original size:22 final size:22
Alignment explanation
Indices: 38039313--38039356 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
38039303 TTTTGAACCA
38039313 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
38039335 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
38039357 AAATTCCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:38039688 original size:13 final size:12
Alignment explanation
Indices: 38039672--38039706 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
38039662 AAAGGAGTTC
38039672 AAAAAAAAATTT
1 AAAAAAAAATTT
38039684 GAAAAAAAAA-TT
1 -AAAAAAAAATTT
38039696 AAAAAAAAATT
1 AAAAAAAAATT
38039707 GCATACGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 9 0.43
12 3 0.14
13 9 0.43
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (12 bp):
AAAAAAAAATTT
Found at i:38040505 original size:15 final size:15
Alignment explanation
Indices: 38040473--38040506 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
38040463 GTTCAACGAA
*
38040473 GAGGCCAACGCAACC
1 GAGGCCAACGAAACC
*
38040488 GAGGCCAACGAAATC
1 GAGGCCAACGAAACC
38040503 GAGG
1 GAGG
38040507 GAGGTTCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.32, T:0.03
Consensus pattern (15 bp):
GAGGCCAACGAAACC
Found at i:38044225 original size:22 final size:22
Alignment explanation
Indices: 38044197--38044240 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
38044187 TTTTGAACCA
38044197 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
38044219 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
38044241 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:38044617 original size:30 final size:30
Alignment explanation
Indices: 38044583--38044679 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
38044573 AGCTCACTCC
38044583 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTCAGCTCACGAGCTAAACCT
* * * * *
38044613 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
* * *
38044643 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTCAGCTCACGAGCTAAACCT
38044673 TAGCTCA
1 TAGCTCA
38044680 TTTTAGTTTA
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTCAGCTCACGAGCTAAACCT
Found at i:38046837 original size:42 final size:42
Alignment explanation
Indices: 38046778--38046883 Score: 203
Period size: 42 Copynumber: 2.5 Consensus size: 42
38046768 CATTTAAGCC
38046778 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
38046820 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
38046862 TCTTAGTTTAATTAAATGAGTT
1 TCTTAGTTTAA-TAAATGAGTT
38046884 TATTTAATGA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 53 0.84
43 10 0.16
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (42 bp):
TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
Found at i:38046885 original size:14 final size:14
Alignment explanation
Indices: 38046866--38046910 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
38046856 AACTCATCTT
*
38046866 AGTTTAATTAAATG
1 AGTTTAATTTAATG
38046880 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
*
38046893 AATTTAATTTAATG
1 AGTTTAATTTAATG
38046907 AGTT
1 AGTT
38046911 GCTTCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:38051373 original size:21 final size:21
Alignment explanation
Indices: 38051309--38051382 Score: 50
Period size: 21 Copynumber: 3.6 Consensus size: 21
38051299 AAAAAAATCA
38051309 GAAAAAGAAAACAAAAGAG-AG
1 GAAAAAGAAAA-AAAAGAGAAG
**
38051330 TG-AAAAG-AAAATCAGTA-AA-
1 -GAAAAAGAAAAAAAAG-AGAAG
38051349 GAAAAAGAAAAAAAAGAGAAG
1 GAAAAAGAAAAAAAAGAGAAG
**
38051370 GAAATTGAAAAAA
1 GAAAAAGAAAAAA
38051383 TGAGTGTCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
18 1 0.03
19 9 0.22
20 13 0.32
21 16 0.40
22 1 0.03
ACGTcount: A:0.70, C:0.03, G:0.20, T:0.07
Consensus pattern (21 bp):
GAAAAAGAAAAAAAAGAGAAG
Found at i:38054402 original size:20 final size:20
Alignment explanation
Indices: 38054379--38054432 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
38054369 AGTTTTTCCC
*
38054379 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
38054399 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
38054419 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
38054433 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:38054414 original size:30 final size:30
Alignment explanation
Indices: 38054379--38054452 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
38054369 AGTTTTTCCC
38054379 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
38054409 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
38054439 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
38054453 TGGCTTAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:38054442 original size:20 final size:20
Alignment explanation
Indices: 38054379--38054443 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
38054369 AGTTTTTCCC
* * * *
38054379 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
38054399 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
38054418 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
38054439 AGCTC
1 AGCTC
38054444 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:38055973 original size:10 final size:10
Alignment explanation
Indices: 38055944--38055974 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
38055934 AAGTAGGTTG
*
38055944 TAAAAAAAAG
1 TAAAAAAAAA
38055954 TAAAAAAAAA
1 TAAAAAAAAA
38055964 TAAAAAAAAA
1 TAAAAAAAAA
38055974 T
1 T
38055975 TTGAGTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (10 bp):
TAAAAAAAAA
Found at i:38056073 original size:19 final size:19
Alignment explanation
Indices: 38056051--38056111 Score: 77
Period size: 19 Copynumber: 3.1 Consensus size: 19
38056041 ATCGAAATTC
38056051 AAAAAAAAAAAAAGTGAAA
1 AAAAAAAAAAAAAGTGAAA
* *
38056070 AAAAGAAAAAAAAGTAAAAA
1 AAAAAAAAAAAAAGT-GAAA
38056090 AAAGAACAAAAAAAAGTGAAA
1 AAA-AA-AAAAAAAAGTGAAA
38056111 A
1 A
38056112 GTCTTGCGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 14 0.40
20 6 0.17
21 5 0.14
22 10 0.29
ACGTcount: A:0.82, C:0.02, G:0.11, T:0.05
Consensus pattern (19 bp):
AAAAAAAAAAAAAGTGAAA
Found at i:38056091 original size:9 final size:9
Alignment explanation
Indices: 38056057--38056091 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
38056047 ATTCAAAAAA
38056057 AAAAAAAGT
1 AAAAAAAGT
*
38056066 GAAAAAAAGA
1 -AAAAAAAGT
38056076 AAAAAAAGT
1 AAAAAAAGT
38056085 AAAAAAA
1 AAAAAAA
38056092 AGAACAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:38056111 original size:10 final size:10
Alignment explanation
Indices: 38056056--38056102 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
38056046 AATTCAAAAA
38056056 AAAAAAAAGT
1 AAAAAAAAGT
*
38056066 GAAAAAAAG-
1 AAAAAAAAGT
38056075 AAAAAAAAGT
1 AAAAAAAAGT
38056085 AAAAAAAAG-
1 AAAAAAAAGT
38056094 AACAAAAAA
1 AA-AAAAAA
38056103 AAGTGAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 10 0.30
10 23 0.70
ACGTcount: A:0.83, C:0.02, G:0.11, T:0.04
Consensus pattern (10 bp):
AAAAAAAAGT
Found at i:38056112 original size:19 final size:19
Alignment explanation
Indices: 38056056--38056112 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 19
38056046 AATTCAAAAA
* *
38056056 AAAAAAAAGTGAAAAAAAG
1 AAAAAAAAGTGAAAAGAAC
*
38056075 AAAAAAAAGTAAAAAAAAGAAC
1 AAAAAAAAGT---GAAAAGAAC
38056097 AAAAAAAAGTGAAAAG
1 AAAAAAAAGTGAAAAG
38056113 TCTTGCGAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 15 0.48
22 16 0.52
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (19 bp):
AAAAAAAAGTGAAAAGAAC
Found at i:38057089 original size:12 final size:12
Alignment explanation
Indices: 38057077--38057194 Score: 50
Period size: 12 Copynumber: 9.8 Consensus size: 12
38057067 GAAAGAGATT
*
38057077 GAAAAAGAAATT
1 GAAAAAGAAATA
38057089 G--AAAGAAA-A
1 GAAAAAGAAATA
*
38057098 CAAAAAGAAA-A
1 GAAAAAGAAATA
*
38057109 CGAAAAAGAAAAA
1 -GAAAAAGAAATA
**
38057122 GAAATTGCAAA-A
1 GAAAAAG-AAATA
*
38057134 GAAAAAGAAATC
1 GAAAAAGAAATA
** *
38057146 GAAAAAGTGAGA
1 GAAAAAGAAATA
38057158 GAAAAAGAAA-A
1 GAAAAAGAAATA
*
38057169 TGAAGAAAAGAAAATT
1 -G-A-AAAAG-AAATA
38057185 GAAAAAGAAA
1 GAAAAAGAAA
38057195 AAGCGAAAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
10 7 0.09
11 12 0.15
12 41 0.51
13 10 0.12
14 6 0.08
15 4 0.05
ACGTcount: A:0.70, C:0.03, G:0.19, T:0.08
Consensus pattern (12 bp):
GAAAAAGAAATA
Found at i:38057120 original size:18 final size:18
Alignment explanation
Indices: 38057094--38057197 Score: 82
Period size: 18 Copynumber: 5.6 Consensus size: 18
38057084 AAATTGAAAG
*
38057094 AAAACAAAAAGAAAACGA
1 AAAAGAAAAAGAAAACGA
** *
38057112 AAAAGAAAAAGAAATTGC
1 AAAAGAAAAAGAAAACGA
*
38057130 AAAAGAAAAAGAAATCGA
1 AAAAGAAAAAGAAAACGA
** * *
38057148 AAAAGTGAGAGAAAAAGA
1 AAAAGAAAAAGAAAACGA
* *
38057166 AAATGAAGAAAAGAAAATTGA
1 AAAAG-A-AAAAGAAAA-CGA
38057187 AAAAGAAAAAG
1 AAAAGAAAAAG
38057198 CGAAAAAAGA
Statistics
Matches: 66, Mismatches: 17, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
18 47 0.71
19 5 0.08
20 8 0.12
21 6 0.09
ACGTcount: A:0.71, C:0.04, G:0.18, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAAACGA
Found at i:38057122 original size:6 final size:6
Alignment explanation
Indices: 38057090--38057197 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
38057080 AAAGAAATTG
* * ** *
38057090 AAAG-A AAACAA AAAGAA AACGAA AAAGAA AAAGAA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** ** * * *
38057137 AAAGAA ATCGAA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AATTGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA-AGAA
38057188 AAAGAA AAAG
1 AAAGAA AAAG
38057198 CGAAAAAAGA
Statistics
Matches: 75, Mismatches: 24, Indels: 7
0.71 0.23 0.07
Matches are distributed among these distances:
5 3 0.04
6 61 0.81
7 7 0.09
8 4 0.05
ACGTcount: A:0.71, C:0.04, G:0.19, T:0.06
Consensus pattern (6 bp):
AAAGAA
Found at i:38057179 original size:14 final size:13
Alignment explanation
Indices: 38057158--38057195 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
38057148 AAAAGTGAGA
38057158 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
38057170 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
38057185 GAAAAAGAAAA
1 GAAAAAGAAAA
38057196 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Done.