Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold94
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: 2274668
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Warning! 33727 characters in sequence are not A, C, G, or T
File 10 of 13
Found at i:1663882 original size:25 final size:25
Alignment explanation
Indices: 1663844--1663896 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 25
1663834 AAATTGGCCA
1663844 TTTTTTTAATTTTTTTTGATTGATT
1 TTTTTTTAATTTTTTTTGATTGATT
*
1663869 TTTTTTTGAATTTTTTTT-CTTGATT
1 TTTTTTT-AATTTTTTTTGATTGATT
1663894 TTT
1 TTT
1663897 ATTATTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 16 0.62
26 10 0.38
ACGTcount: A:0.13, C:0.02, G:0.08, T:0.77
Consensus pattern (25 bp):
TTTTTTTAATTTTTTTTGATTGATT
Found at i:1663884 original size:14 final size:13
Alignment explanation
Indices: 1663853--1663896 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
1663843 ATTTTTTTAA
1663853 TTTTTTTTGATTGAT
1 TTTTTTTTGATT--T
1663868 TTTTTTTTGAATTT
1 TTTTTTTTG-ATTT
*
1663882 TTTTTCTTGATTT
1 TTTTTTTTGATTT
1663895 TT
1 TT
1663897 ATTATTATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 6 0.22
14 9 0.33
15 9 0.33
16 3 0.11
ACGTcount: A:0.11, C:0.02, G:0.09, T:0.77
Consensus pattern (13 bp):
TTTTTTTTGATTT
Found at i:1664178 original size:2 final size:2
Alignment explanation
Indices: 1664171--1664207 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1664161 GGTTACCAAA
1664171 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1664208 ATTAGGCTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1664267 original size:9 final size:9
Alignment explanation
Indices: 1664253--1664278 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1664243 CATCGGTAGG
1664253 CTCAAATGA
1 CTCAAATGA
1664262 CTCAAATGA
1 CTCAAATGA
1664271 CTCAAATG
1 CTCAAATG
1664279 GTCCAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (9 bp):
CTCAAATGA
Found at i:1669048 original size:26 final size:25
Alignment explanation
Indices: 1668992--1669048 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 25
1668982 CTTTTAAATA
* *
1668992 TTTTCTTGTTAAAATTTTGAAATTT
1 TTTTCTTGTTAAAATTTTAAAATTG
1669017 TATTTCTTGTTAAAATTTTAAAATTGG
1 T-TTTCTTGTTAAAATTTTAAAATT-G
1669044 TTTTC
1 TTTTC
1669049 ATTTTACAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 1 0.04
26 26 0.93
27 1 0.04
ACGTcount: A:0.28, C:0.05, G:0.09, T:0.58
Consensus pattern (25 bp):
TTTTCTTGTTAAAATTTTAAAATTG
Found at i:1669508 original size:14 final size:14
Alignment explanation
Indices: 1669489--1669515 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1669479 AATTTTGTTT
1669489 ATAATTGTTAATTG
1 ATAATTGTTAATTG
1669503 ATAATTGTTAATT
1 ATAATTGTTAATT
1669516 TTAATTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (14 bp):
ATAATTGTTAATTG
Found at i:1671698 original size:153 final size:152
Alignment explanation
Indices: 1671255--1671733 Score: 448
Period size: 155 Copynumber: 3.1 Consensus size: 152
1671245 TCTAGGTCTT
* * *
1671255 TTTTATGCCAAATGTGTGCATTT-AGAATATGTTCATCCTTTTTCTTATATTTGTTGTGTCTTTT
1 TTTTATGCCAAAGGTGTGCATTTAAG-ATAAGTTCATCC-TTTTCTTATCTTT-TTGTGTCTTTT
* * *
1671319 AAGGTTACTGAGATA-TTTCATGTCGAAGGTATATCTTAAGGGTATTTTGGTAATTTTTCTAGAA
63 AAGGTTACGGA-ATATTTTCACGTCGAAGGTATA-CTCAAGGGTATTTTGGTAATTTTTCTAGAA
* * *
1671383 TTGAGTCCTAGGTTATCACCAAGTTAC
126 TTGAGTCCTAAGTAATCACCAAGTTGC
* *
1671410 TTTTAT-CCAAAAGGTGTGCATTTAGGATAAGTTCATCATTTTCCTTATCTTTTTTGTGTCTTTT
1 TTTTATGCC-AAAGGTGTGCATTTAAGATAAGTTCATCCTTTT-CTTATC-TTTTTGTGTCTTTT
* * * ** * *
1671474 AAGGTTACCTGG-ATACTTTT-ACGTCGAAGGTATAC-CTAGGAGCATTCTGGTAATTTCCCCAT
63 AAGGTTA-C-GGAATA-TTTTCACGTCGAAGGTATACTCAAGG-GTATTTTGGTAATTTTTCTAG
* ** * *
1671536 AATTAAGTCCTAAGTCGTCACCGAGTCGC
124 AATTGAGTCCTAAGTAATCACCAAGTTGC
* * * * * * *
1671565 TTTTGTGCCAAAGGTGTACATTTAAGATAGGATCATCCTTTTATTATCTATTTGTGTCCTTTAAG
1 TTTTATGCCAAAGGTGTGCATTTAAGATAAGTTCATCCTTTTCTTATCTTTTTGTGTCTTTTAAG
* * * *
1671630 GTTATCGGAATATTTTCACGTCGAAGCTATACTCAAGGGTATTTTAGTAGTTTTTCTAGAATCGA
66 GTTA-CGGAATATTTTCACGTCGAAGGTATACTCAAGGGTATTTTGGTAATTTTTCTAGAATTGA
* * * *
1671695 GTCCGATGTAATCACTAGGTTGC
130 GTCCTAAGTAATCACCAAGTTGC
*
1671718 TTTTGTGCCAAAGGTG
1 TTTTATGCCAAAGGTG
1671734 CATATTAGGA
Statistics
Matches: 259, Mismatches: 52, Indels: 28
0.76 0.15 0.08
Matches are distributed among these distances:
152 6 0.02
153 85 0.33
154 18 0.07
155 126 0.49
156 20 0.08
157 4 0.02
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.41
Consensus pattern (152 bp):
TTTTATGCCAAAGGTGTGCATTTAAGATAAGTTCATCCTTTTCTTATCTTTTTGTGTCTTTTAAG
GTTACGGAATATTTTCACGTCGAAGGTATACTCAAGGGTATTTTGGTAATTTTTCTAGAATTGAG
TCCTAAGTAATCACCAAGTTGC
Found at i:1679064 original size:81 final size:81
Alignment explanation
Indices: 1678941--1679370 Score: 348
Period size: 82 Copynumber: 5.3 Consensus size: 81
1678931 AAATTTTGAA
* * * * * * ** *
1678941 AAAAACTGAGGTTAGAGTATCC-CATCAGAGATAGTGGGGTTGGAGTATCTTCGTAGATGGAAAT
1 AAAAA-TGGGGTTAGAGTATCCTC-TCAAAAATGGTGAGGTTAGAGTATCCCCGTAGATGAAAAT
*
1679005 TTTGATTTTTTTGGAAGT
64 TTTGATTTTTTTAGAAGT
* * * * * * **
1679023 AAAAATGGGGCTAGTGTATCCTCTCGAAAATTGTGAGGTTGGTGTATCCCCAAAGATGGAAAA-T
1 AAAAATGGGGTTAGAGTATCCTCTCAAAAATGGTGAGGTTAGAGTATCCCCGTAGAT-GAAAATT
1679087 TTGATGTTTTTTAGAAGT
65 TTGAT-TTTTTTAGAAGT
** * * * *
1679105 AAAAACAGGGTTAGAGTATCCTTTCAAAAATGGTGGGGTTATAGTATCCCCATAGATGAAAATTT
1 AAAAATGGGGTTAGAGTATCCTCTCAAAAATGGTGAGGTTAGAGTATCCCCGTAGATGAAAATTT
* * *
1679170 TGGTATTTTTAGAAAT
66 TGATTTTTTTAGAAGT
* * * *
1679186 AAAAATGGGGTTGGAGTAT-CTCCTCAAAAATGGTGGGGGTTAGAGTATCCCCGAAGATGAAAAA
1 AAAAATGGGGTTAGAGTATCCT-CTCAAAAATGGT-GAGGTTAGAGTATCCCCGTAGATGAAAAT
* * *
1679250 TTTAATGTTTTTGGAAGT
64 TTTGATTTTTTTAGAAGT
** * * * * **
1679268 AAGGACGGAGTTGGAGTATCCTCTCGAAAATAATG-GAGTTAGAGTATCCCCGTAGATGAAAATT
1 AAAAATGGGGTTAGAGTATCCTCTCAAAAATGGTGAG-GTTAGAGTATCCCCGTAGATGAAAATT
1679332 TTGATAATTTTTT-GAAGT
65 TTGAT--TTTTTTAGAAGT
* *
1679350 AAAAATGGGGTTGGAATATCC
1 AAAAATGGGGTTAGAGTATCC
1679371 CCTCGGAGAT
Statistics
Matches: 279, Mismatches: 59, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
80 3 0.01
81 115 0.41
82 154 0.55
83 7 0.03
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.32
Consensus pattern (81 bp):
AAAAATGGGGTTAGAGTATCCTCTCAAAAATGGTGAGGTTAGAGTATCCCCGTAGATGAAAATTT
TGATTTTTTTAGAAGT
Found at i:1679269 original size:163 final size:162
Alignment explanation
Indices: 1678941--1679371 Score: 436
Period size: 163 Copynumber: 2.6 Consensus size: 162
1678931 AAATTTTGAA
* * * * * * ** * *
1678941 AAAAACTGAGGTTAGAGTATCC-CATCAGAGATAGTGGGGTTGGAGTATCTTCGTAGATGGAAAT
1 AAAAACGGA-GTTAGAGTATCCTC-TCAAAAATAATGGAGTTAGAGTATCCCCATAGATGAAAAT
* * * * * * * * *
1679005 TTTGATTTTTTTGGAAGTAAAAATGGGGCTAGTGTATCCTCTCGAAAATTGTGAGGTTGGTGTAT
64 TTTGATATTTTTAGAAGTAAAAATGGGGTTGGAGTATCC-CTCAAAAATGGTGAGGTTAGAGTAT
* *
1679070 CCCCAAAGATGGAAAATTTGATGTTTTTTAGAAGT
128 CCCCAAAGATGAAAAATTTAATGTTTTTTAGAAGT
* ** * *
1679105 AAAAACAGG-GTTAGAGTATCCTTTCAAAAATGGTGGGGTTATAGTATCCCCATAGATGAAAATT
1 AAAAAC-GGAGTTAGAGTATCCTCTCAAAAATAATGGAGTTAGAGTATCCCCATAGATGAAAATT
* * *
1679169 TTGGTATTTTTAGAAATAAAAATGGGGTTGGAGTATCTCCTCAAAAATGGTGGGGGTTAGAGTAT
65 TTGATATTTTTAGAAGTAAAAATGGGGTTGGAGTATC-CCTCAAAAATGGT-GAGGTTAGAGTAT
* *
1679234 CCCCGAAGATGAAAAATTTAATG-TTTTTGGAAGT
128 CCCCAAAGATGAAAAATTTAATGTTTTTTAGAAGT
** * * *
1679268 AAGGACGGAGTTGGAGTATCCTCTCGAAAATAATGGAGTTAGAGTATCCCCGTAGATGAAAATTT
1 AAAAACGGAGTTAGAGTATCCTCTCAAAAATAATGGAGTTAGAGTATCCCCATAGATGAAAATTT
* *
1679333 TGATAATTTTTTGAAGTAAAAATGGGGTTGGAATATCCC
66 TGAT-ATTTTTAGAAGTAAAAATGGGGTTGGAGTATCCC
1679372 CTCGGAGATG
Statistics
Matches: 220, Mismatches: 41, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
162 2 0.01
163 151 0.69
164 66 0.30
165 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (162 bp):
AAAAACGGAGTTAGAGTATCCTCTCAAAAATAATGGAGTTAGAGTATCCCCATAGATGAAAATTT
TGATATTTTTAGAAGTAAAAATGGGGTTGGAGTATCCCTCAAAAATGGTGAGGTTAGAGTATCCC
CAAAGATGAAAAATTTAATGTTTTTTAGAAGT
Found at i:1679422 original size:163 final size:163
Alignment explanation
Indices: 1679118--1679428 Score: 365
Period size: 163 Copynumber: 1.9 Consensus size: 163
1679108 AACAGGGTTA
* ** * * *
1679118 GAGTATCCTTTCAAAAATGGTGGGGTTATAGTATCCCCATAGATGAAAATTTTGGTATTTTTAGA
1 GAGTATCCTCTCAAAAATAATGGAGTTAGAGTATCCCCATAGATGAAAATTTTGATATTTTTAGA
* * * * * *
1679183 AATAAAAATGGGGTTGGAGTATCTCCTCAAAAATGGTGGGGGTTAGAGTATCCCCGAAGATGAAA
66 AATAAAAATGGGGTTGGAATATCCCCTCAAAAATGGTCGGGATTAGACTATCCCCGAAAATGAAA
* *
1679248 AATTTAATGTTTTTGGAAGTAAGGACGGAGTTG
131 AATTCAATGTTTTGGGAAGTAAGGACGGAGTTG
* * *
1679281 GAGTATCCTCTCGAAAATAATGGAGTTAGAGTATCCCCGTAGATGAAAATTTTGATAATTTTTTG
1 GAGTATCCTCTCAAAAATAATGGAGTTAGAGTATCCCCATAGATGAAAATTTTGAT-ATTTTTAG
* ** * * ***
1679346 AAGTAAAAATGGGGTTGGAATATCCCCTCGGAGATGG-CGGGATTGGACTAT-CTTTAAAATGAA
65 AAATAAAAATGGGGTTGGAATATCCCCTCAAAAATGGTCGGGATTAGACTATCCCCGAAAATGAA
1679409 GAAATTCAATGTTTTGGGAA
130 -AAATTCAATGTTTTGGGAA
1679429 ATAAAAACGG
Statistics
Matches: 121, Mismatches: 25, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
162 8 0.07
163 75 0.62
164 38 0.31
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (163 bp):
GAGTATCCTCTCAAAAATAATGGAGTTAGAGTATCCCCATAGATGAAAATTTTGATATTTTTAGA
AATAAAAATGGGGTTGGAATATCCCCTCAAAAATGGTCGGGATTAGACTATCCCCGAAAATGAAA
AATTCAATGTTTTGGGAAGTAAGGACGGAGTTG
Found at i:1682033 original size:20 final size:20
Alignment explanation
Indices: 1682008--1682054 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
1681998 CATTTAAGAC
1682008 ATGTATCAATACATTCA-CTT
1 ATGTATCAATACA-TCAGCTT
*
1682028 ATGTATCGATACATCAGCTT
1 ATGTATCAATACATCAGCTT
1682048 ATTGTAT
1 A-TGTAT
1682055 TGGTACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 3 0.12
20 16 0.67
21 5 0.21
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTATCAATACATCAGCTT
Found at i:1684511 original size:52 final size:52
Alignment explanation
Indices: 1684433--1684559 Score: 175
Period size: 52 Copynumber: 2.5 Consensus size: 52
1684423 CAATATATTG
* * * *
1684433 TTCATTGTATCAATACATTCTAGGTTTTTAACCCAAATGTATTGATACATTT
1 TTCATTGTATCGATACATGCTAGGTTTTTAACCAAAATGTATTGATACATTC
* * *
1684485 TTCATTATATCGATACATGCTAGGTTTTTGACCAAAATGTGTTGATACATTC
1 TTCATTGTATCGATACATGCTAGGTTTTTAACCAAAATGTATTGATACATTC
*
1684537 TTCAATGTATCGATACATG-TAGG
1 TTCATTGTATCGATACATGCTAGG
1684560 CAATTTTGCA
Statistics
Matches: 66, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
51 4 0.06
52 62 0.94
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (52 bp):
TTCATTGTATCGATACATGCTAGGTTTTTAACCAAAATGTATTGATACATTC
Found at i:1688975 original size:9 final size:9
Alignment explanation
Indices: 1688961--1689011 Score: 79
Period size: 9 Copynumber: 5.8 Consensus size: 9
1688951 TATTATGCCT
1688961 AAAAAAAAG
1 AAAAAAAAG
1688970 AAAAAAAA-
1 AAAAAAAAG
1688978 AATAAAAAAG
1 AA-AAAAAAG
1688988 AAAAAAAAG
1 AAAAAAAAG
1688997 -AAAAAAAG
1 AAAAAAAAG
1689005 AAAAAAA
1 AAAAAAA
1689012 TCAAATAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
8 10 0.26
9 27 0.69
10 2 0.05
ACGTcount: A:0.90, C:0.00, G:0.08, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:1688984 original size:17 final size:17
Alignment explanation
Indices: 1688964--1689022 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 17
1688954 TATGCCTAAA
1688964 AAAAAGAAAAAAAAAAT
1 AAAAAGAAAAAAAAAAT
1688981 AAAAAAGAAAAAAAAGAA-
1 -AAAAAGAAAAAAAA-AAT
1688999 AAAAAGAAAAAAATCAAAT
1 AAAAAGAAAAAAA--AAAT
1689018 AAAAA
1 AAAAA
1689023 ATTCAGACGA
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
17 13 0.35
18 16 0.43
19 8 0.22
ACGTcount: A:0.86, C:0.02, G:0.07, T:0.05
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAT
Found at i:1689023 original size:1 final size:1
Alignment explanation
Indices: 1688961--1689011 Score: 57
Period size: 1 Copynumber: 51.0 Consensus size: 1
1688951 TATTATGCCT
* * * * *
1688961 AAAAAAAAGAAAAAAAAAATAAAAAAGAAAAAAAAGAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1689012 TCAAATAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.90, C:0.00, G:0.08, T:0.02
Consensus pattern (1 bp):
A
Found at i:1689882 original size:66 final size:67
Alignment explanation
Indices: 1689699--1689882 Score: 212
Period size: 67 Copynumber: 2.8 Consensus size: 67
1689689 GAGAAATTAT
* * * ** * *
1689699 AGAACCATATATTCTCTATCATGATCTTTTACTCCAATTTGTTATCAGTTTTTTTCGATTATCAA
1 AGAACCACATATTCTCAATCATGATCTTTTACTTCAGCTTGTTATCAGTTTATTTCGACTATCAA
*
1689764 TG
66 TA
* * * **
1689766 GGAACCACATATTCTCAATCATGAT-TTTCTATTTCAGCTTGTTATCAGTTTATTTCGGCTATTG
1 AGAACCACATATTCTCAATCATGATCTTT-TACTTCAGCTTGTTATCAGTTTATTTCGACTATCA
1689830 ATA
65 ATA
1689833 AGAACCACAT-TTCCTC-ATCATGATCTTTTACTTCAGCTTGTTATCAGTTT
1 AGAACCACATATT-CTCAATCATGATCTTTTACTTCAGCTTGTTATCAGTTT
1689883 TGACCGTTGA
Statistics
Matches: 99, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
66 34 0.34
67 65 0.66
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.44
Consensus pattern (67 bp):
AGAACCACATATTCTCAATCATGATCTTTTACTTCAGCTTGTTATCAGTTTATTTCGACTATCAA
TA
Found at i:1690819 original size:40 final size:40
Alignment explanation
Indices: 1690739--1690820 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
1690729 GTCTTGATCA
** *
1690739 AACCTTTACTCTTAGTTGACTTGTCGATCTTGTCCCAATC
1 AACCTTTACAATTAGTTGACTTGTCGATCTTGTACCAATC
* *
1690779 AACCTTTACAATTTGTTGACTTGTCGAT-TTCGTACTAATC
1 AACCTTTACAATTAGTTGACTTGTCGATCTT-GTACCAATC
1690819 AA
1 AA
1690821 GCATTCTCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
39 2 0.06
40 34 0.94
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.40
Consensus pattern (40 bp):
AACCTTTACAATTAGTTGACTTGTCGATCTTGTACCAATC
Found at i:1691137 original size:67 final size:67
Alignment explanation
Indices: 1691022--1691189 Score: 187
Period size: 67 Copynumber: 2.5 Consensus size: 67
1691012 CCTTTTTACC
* * * * * *
1691022 TTTAGTTGA-TGTTATCGATTTTACCTTGGTCAATAACCTTTTTAACTTAGG-CTCTATCTTAGT
1 TTTAGTTGACT-TTATCAATTTTACCTTGGTCAACAACATTTTCAACTTAGGTCTCGATCTGA-T
*
1691085 TTCT
64 CTCT
* * *
1691089 TTTAGTTGACTTTATCAATTTTACCTTGGTCAACAACATTTTCGACTTAGGTTTCGCTCTGATCT
1 TTTAGTTGACTTTATCAATTTTACCTTGGTCAACAACATTTTCAACTTAGGTCTCGATCTGATCT
1691154 CT
66 CT
* * *
1691156 TTTAGTTAACTTTATCAATTTTGCCCTGGTCAAC
1 TTTAGTTGACTTTATCAATTTTACCTTGGTCAAC
1691190 CCCTTTTTGA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
67 79 0.92
68 7 0.08
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.46
Consensus pattern (67 bp):
TTTAGTTGACTTTATCAATTTTACCTTGGTCAACAACATTTTCAACTTAGGTCTCGATCTGATCT
CT
Found at i:1694252 original size:29 final size:29
Alignment explanation
Indices: 1694195--1694253 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
1694185 GCCATTTTAG
* *
1694195 GGTCAAAGTGTAATTTTAAAAATTTTAAA
1 GGTCAAAGTGTAATTTTAAAAAGTGTAAA
* *
1694224 GGTCAAAGTGTGATTTTGAAAAGTGTAAA
1 GGTCAAAGTGTAATTTTAAAAAGTGTAAA
1694253 G
1 G
1694254 TATTTAAGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (29 bp):
GGTCAAAGTGTAATTTTAAAAAGTGTAAA
Found at i:1694286 original size:106 final size:106
Alignment explanation
Indices: 1694143--1694351 Score: 364
Period size: 106 Copynumber: 2.0 Consensus size: 106
1694133 ATTACCCATT
* *
1694143 TAAAATATTTAAGACCTTTTAGGGACATTTTAAGCATTTTAGGCCATTTTAGGGTCAAAGTGTAA
1 TAAAATATTTAAGACCTTTTAAGGACATTTTAAGCATTTTAGGCCATTTTAAGGTCAAAGTGTAA
1694208 TTTTAAAAATTTTAAAGGTCAAAGTGTGATTTTGAAAAGTG
66 TTTTAAAAATTTTAAAGGTCAAAGTGTGATTTTGAAAAGTG
* *
1694249 TAAAGTATTTAAGACCTTTTAAGGACATTTTCAGCATTTTAGGCCATTTTAAGGTCAAAGTGTAA
1 TAAAATATTTAAGACCTTTTAAGGACATTTTAAGCATTTTAGGCCATTTTAAGGTCAAAGTGTAA
* *
1694314 TTTTAATAATTTTAAGGGTCAAAGTGTGATTTTGAAAA
66 TTTTAAAAATTTTAAAGGTCAAAGTGTGATTTTGAAAA
1694352 ATGTTTAGGG
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 97 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (106 bp):
TAAAATATTTAAGACCTTTTAAGGACATTTTAAGCATTTTAGGCCATTTTAAGGTCAAAGTGTAA
TTTTAAAAATTTTAAAGGTCAAAGTGTGATTTTGAAAAGTG
Found at i:1694333 original size:29 final size:29
Alignment explanation
Indices: 1694294--1694440 Score: 133
Period size: 29 Copynumber: 5.0 Consensus size: 29
1694284 ATTTTAGGCC
1694294 ATTTTAA-GGTCAAAGTGTAATTTT-AATA
1 ATTTTAAGGGTCAAAGTGTAATTTTGAA-A
*
1694322 ATTTTAAGGGTCAAAGTGTGATTTTGAAAA
1 ATTTTAAGGGTCAAAGTGTAATTTTG-AAA
* *
1694352 ATGTTTAGGGGTTAATA-TGTAATTTTGAAA
1 AT-TTTAAGGGTCAA-AGTGTAATTTTGAAA
* * *
1694382 AGTTT-AGAGATCAAAATGTAATTTTGAAA
1 ATTTTAAG-GGTCAAAGTGTAATTTTGAAA
* *
1694411 ATTTT-AGGTTTCAAAGTGTAATTTTAAAA
1 ATTTTAAGG-GTCAAAGTGTAATTTTGAAA
1694440 A
1 A
1694441 ATCTAGTGAC
Statistics
Matches: 99, Mismatches: 12, Indels: 15
0.79 0.10 0.12
Matches are distributed among these distances:
28 10 0.10
29 60 0.61
30 7 0.07
31 21 0.21
32 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.40
Consensus pattern (29 bp):
ATTTTAAGGGTCAAAGTGTAATTTTGAAA
Found at i:1695005 original size:153 final size:150
Alignment explanation
Indices: 1694740--1695140 Score: 395
Period size: 153 Copynumber: 2.6 Consensus size: 150
1694730 TACCGAGTCG
* * * *
1694740 CTTTTATGCCAAAGGTGTTCATTTAGGATAGGTTTGTCTTTTTTCTTATCTTTTT-TGTATTCTT
1 CTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCGTC-CTTTTCTTATCTTTTTCTGT-CT-TT
* * * * *
1694804 TAGGATTATCGAGATATTTTCATGTC-GAAG-GTATCCTTAACGATATTTTGGTAATTTCGTTAA
63 TAGGATTATCAAGATACTTTCACGTCAAAAGTATATCC-TAACGATATTTTGGTAATTTC-TTAA
* * **
1694867 -AATTGAGTCTTAGGTTGTCAATAGGT
126 GAACTAAGTCTTAGGTCATC-AT-GGT
1694893 CACTTTTATGCCAAAGGTGTGCATTTA-G-TAGGTTCGTCCTTTTCCTTATCTTTTTCATGTCTT
1 --CTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCGTCCTTTT-CTTATCTTTTTC-TGTCTT
* * * *
1694956 TTAGGATTACCAAAATACTTTCACGTCAAAAGTATATCC-AAGGGTATTTTGGTAATTTCTTAAG
62 TTAGGATTATCAAGATACTTTCACGTCAAAAGTATATCCTAACGATATTTTGGTAATTTCTTAAG
*
1695020 AACTAAGTCTTAGGTCATCATTGT
127 AACTAAGTCTTAGGTCATCATGGT
* * * * * *
1695044 CTTTTATGCCAAAGGTATGCATTTAGGATAGTTTCATCCTTTTATT-TTTTTTTCGTGTCCTTTA
1 CTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCGTCCTTTTCTTATCTTTTTC-TGTCTTTTA
* * *
1695108 GGGTTATTAAGATACTTTCACGTCAAAGGTATA
65 GGATTATCAAGATACTTTCACGTCAAAAGTATA
1695141 CCCACTAGAC
Statistics
Matches: 208, Mismatches: 30, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
149 67 0.32
150 3 0.01
151 15 0.07
152 10 0.05
153 76 0.37
154 5 0.02
155 32 0.15
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.44
Consensus pattern (150 bp):
CTTTTATGCCAAAGGTGTGCATTTAGGATAGGTTCGTCCTTTTCTTATCTTTTTCTGTCTTTTAG
GATTATCAAGATACTTTCACGTCAAAAGTATATCCTAACGATATTTTGGTAATTTCTTAAGAACT
AAGTCTTAGGTCATCATGGT
Found at i:1703710 original size:12 final size:12
Alignment explanation
Indices: 1703651--1703718 Score: 66
Period size: 12 Copynumber: 5.4 Consensus size: 12
1703641 AAAATTATAG
1703651 ATTTTAATATTTAA
1 ATTTTAA-A-TTAA
*
1703665 ATTTTAAATTTA
1 ATTTTAAATTAA
* *
1703677 GTATTAAA-TAA
1 ATTTTAAATTAA
1703688 ATTAATTAAATTAA
1 ATT--TTAAATTAA
1703702 ATTTTAAATTAA
1 ATTTTAAATTAA
1703714 ATTTT
1 ATTTT
1703719 TTTATTATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
11 3 0.07
12 23 0.51
13 6 0.13
14 13 0.29
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (12 bp):
ATTTTAAATTAA
Found at i:1704175 original size:2 final size:2
Alignment explanation
Indices: 1704168--1704197 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1704158 ACAAAAATCT
*
1704168 TC TC TC TC TC TC TC TC TC TC TC TC AC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1704198 ATTTGACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.03, C:0.50, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:1709520 original size:33 final size:33
Alignment explanation
Indices: 1709477--1709540 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
1709467 TTTATTTTTA
* *
1709477 TTTTAAATTTAA-TAATATTAAAGATTAATATCT
1 TTTTAAATTTAACAAAT-TTAAAGATGAATATCT
*
1709510 TTTTTAATTTAACAAATTTAAAGATGAATAT
1 TTTTAAATTTAACAAATTTAAAGATGAATAT
1709541 TATTTCAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 24 0.89
34 3 0.11
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (33 bp):
TTTTAAATTTAACAAATTTAAAGATGAATATCT
Found at i:1709623 original size:28 final size:29
Alignment explanation
Indices: 1709575--1709629 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
1709565 TTTTAAAAAT
* *
1709575 GATTGTTAGAAATAATTTTTTTGTCTTAA
1 GATTGTTAAAAATAATTTTTTTATCTTAA
*
1709604 GATTTTTAAAAATAA-TTTTTTATCTT
1 GATTGTTAAAAATAATTTTTTTATCTT
1709630 TTATAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 10 0.43
29 13 0.57
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.55
Consensus pattern (29 bp):
GATTGTTAAAAATAATTTTTTTATCTTAA
Found at i:1709979 original size:50 final size:50
Alignment explanation
Indices: 1709901--1710038 Score: 195
Period size: 50 Copynumber: 2.8 Consensus size: 50
1709891 GGTGGAAAGT
* *
1709901 ACCTTTGACAATAAAGAGAGGTGACCATAATTGTTGACGATTCTTCACTA
1 ACCTTTGACAATAAAGAGAGGTGACCATAATTATTGACGATTCTTCACCA
* *
1709951 ACCTTTGACAATAAAGGGAGGTGGCCATAATTATTGACGATTCTTCACCA
1 ACCTTTGACAATAAAGAGAGGTGACCATAATTATTGACGATTCTTCACCA
** * * *
1710001 ACCTTTGACAATGGAGAAAGATGACCATAATTGTTGAC
1 ACCTTTGACAATAAAGAGAGGTGACCATAATTATTGAC
1710039 TCTAAGTATA
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (50 bp):
ACCTTTGACAATAAAGAGAGGTGACCATAATTATTGACGATTCTTCACCA
Found at i:1714479 original size:50 final size:50
Alignment explanation
Indices: 1714422--1714659 Score: 332
Period size: 50 Copynumber: 4.8 Consensus size: 50
1714412 GGTAGAAAGT
* *
1714422 ACCTTTGACAATAGAGAGAGGTTGACATAATTGTTGACGATTCTTCACCA
1 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTCTTCACCA
* * *
1714472 ACCTTTGACAATAGAGGGAGGTGGCCATAATTATTGACGATTTTTCACCA
1 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTCTTCACCA
* * * * *
1714522 ACCTTTGATAATAAAAAGAGGTGGCCATAATTGTTGACGATTTTTCATCA
1 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTCTTCACCA
* * * *
1714572 ACTTTTGATAATAGAGAAAGGTGGCCATAATTATTGACGATTCTTCACCA
1 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTCTTCACCA
* *
1714622 ACCTTTGACAATGGAGAAAGGTGGCCATAATTGTTGAC
1 ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGAC
1714660 TCTAAGTATA
Statistics
Matches: 166, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 166 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (50 bp):
ACCTTTGACAATAGAGAGAGGTGGCCATAATTGTTGACGATTCTTCACCA
Found at i:1718418 original size:7 final size:7
Alignment explanation
Indices: 1718402--1718434 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
1718392 TTTTTAATAA
*
1718402 AAAAAAT
1 AAAAATT
1718409 AAAAATT
1 AAAAATT
1718416 AAAAATT
1 AAAAATT
1718423 AAAAATT
1 AAAAATT
1718430 AAAAA
1 AAAAA
1718435 CATGATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (7 bp):
AAAAATT
Found at i:1718425 original size:14 final size:14
Alignment explanation
Indices: 1718402--1718450 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
1718392 TTTTTAATAA
1718402 AAAAAATAAAAATT
1 AAAAAATAAAAATT
*
1718416 AAAAATTAAAAATT
1 AAAAAATAAAAATT
*
1718430 AAAAACATGATAAATT
1 AAAAA-AT-AAAAATT
1718446 AAAAA
1 AAAAA
1718451 GCAAACAGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 18 0.60
15 1 0.03
16 11 0.37
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (14 bp):
AAAAAATAAAAATT
Found at i:1718762 original size:13 final size:14
Alignment explanation
Indices: 1718737--1718769 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1718727 AATCAAGTAA
1718737 GTATTTATTTATTT
1 GTATTTATTTATTT
1718751 GTATTT-TTTATTT
1 GTATTTATTTATTT
*
1718764 TTATTT
1 GTATTT
1718770 GACCTTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (14 bp):
GTATTTATTTATTT
Found at i:1719036 original size:15 final size:14
Alignment explanation
Indices: 1719012--1719041 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
1719002 TAATAAAATA
1719012 TATATTTATTAATT
1 TATATTTATTAATT
1719026 TATAGTTTATTAATT
1 TATA-TTTATTAATT
1719041 T
1 T
1719042 TTTTATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (14 bp):
TATATTTATTAATT
Found at i:1719187 original size:15 final size:15
Alignment explanation
Indices: 1719169--1719224 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 15
1719159 TATTTGAATT
1719169 TTTTAATAATTTTTA
1 TTTTAATAATTTTTA
*
1719184 TTTTTAT-ATTTTTA
1 TTTTAATAATTTTTA
* *
1719198 TTTTTATTATTTTTAA
1 TTTTAATAATTTTT-A
*
1719214 TTTAAATAATT
1 TTTTAATAATT
1719225 AAAAAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 14 0.40
15 12 0.34
16 9 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTAATAATTTTTA
Found at i:1719195 original size:23 final size:23
Alignment explanation
Indices: 1719145--1719224 Score: 67
Period size: 23 Copynumber: 3.6 Consensus size: 23
1719135 ATTATATATT
* **
1719145 TATTTT-ATAATTTATATTTGAA
1 TATTTTAATAATTTTTATTTTTA
*
1719167 TTTTTTAATAATTTTTATTTTTA
1 TATTTTAATAATTTTTATTTTTA
* *
1719190 TATTTTTAT-TTTTATTATTTTTA
1 TATTTTAATAATTT-TTATTTTTA
*
1719213 -ATTTAAATAATT
1 TATTTTAATAATT
1719225 AAAAAAATTA
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
22 14 0.31
23 31 0.69
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (23 bp):
TATTTTAATAATTTTTATTTTTA
Found at i:1719196 original size:14 final size:15
Alignment explanation
Indices: 1719177--1719212 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
1719167 TTTTTTAATA
1719177 ATTTTTATTTTTA-T
1 ATTTTTATTTTTATT
1719191 ATTTTTATTTTTATT
1 ATTTTTATTTTTATT
1719206 ATTTTTA
1 ATTTTTA
1719213 ATTTAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
ATTTTTATTTTTATT
Found at i:1722049 original size:26 final size:27
Alignment explanation
Indices: 1721997--1722053 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
1721987 TAGAATTTAG
*
1721997 TTTTGTAATTAGAAATGAAATTAATTT
1 TTTTGCAATTAGAAATGAAATTAATTT
1722024 TTTTGCAATTAGAAATGAAATT-ATTT
1 TTTTGCAATTAGAAATGAAATTAATTT
1722050 TTTT
1 TTTT
1722054 CATTTTTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.51
Consensus pattern (27 bp):
TTTTGCAATTAGAAATGAAATTAATTT
Found at i:1722221 original size:18 final size:19
Alignment explanation
Indices: 1722186--1722221 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1722176 TAATTAAATA
*
1722186 ATTTAATCTATTTTGTATT
1 ATTTAATCTATATTGTATT
1722205 ATTTAAT-TATATTGTAT
1 ATTTAATCTATATTGTAT
1722222 AAATATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (19 bp):
ATTTAATCTATATTGTATT
Found at i:1723162 original size:33 final size:33
Alignment explanation
Indices: 1723125--1723196 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
1723115 AAATTATCCT
* *
1723125 TATCAACCCCAAATGCATCATCTATCTCAAATG
1 TATCAACCCCAAATACATCATCTACCTCAAATG
* * * * *
1723158 TATCATCCTCAAATATATCCTTTACCTCAAATG
1 TATCAACCCCAAATACATCATCTACCTCAAATG
1723191 TATCAA
1 TATCAA
1723197 TAAGAGAATG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.36, C:0.28, G:0.04, T:0.32
Consensus pattern (33 bp):
TATCAACCCCAAATACATCATCTACCTCAAATG
Found at i:1725976 original size:15 final size:15
Alignment explanation
Indices: 1725956--1725994 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
1725946 ACATGAAAAG
*
1725956 AAGAAGAAAATGAAA
1 AAGAAGAAAAAGAAA
*
1725971 AAGAAGAAAAAGAAT
1 AAGAAGAAAAAGAAA
1725986 AAGAA-AAAA
1 AAGAAGAAAA
1725995 GATAGTTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (15 bp):
AAGAAGAAAAAGAAA
Found at i:1725983 original size:21 final size:21
Alignment explanation
Indices: 1725953--1725993 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1725943 TCAACATGAA
*
1725953 AAGAAGAAGAA-AATGAAAAAG
1 AAGAAAAAGAATAA-GAAAAAG
1725974 AAGAAAAAGAATAAGAAAAA
1 AAGAAAAAGAATAAGAAAAA
1725994 AGATAGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.05
Consensus pattern (21 bp):
AAGAAAAAGAATAAGAAAAAG
Found at i:1728553 original size:20 final size:20
Alignment explanation
Indices: 1728515--1728553 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1728505 TGAAGAAAGG
* *
1728515 AATCAAAGGAAAATTAAGTA
1 AATCAAAGCAAAATGAAGTA
*
1728535 AATCAAAGCAAAGTGAAGT
1 AATCAAAGCAAAATGAAGT
1728554 CTAAAAGAAA
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:0.56, C:0.08, G:0.18, T:0.18
Consensus pattern (20 bp):
AATCAAAGCAAAATGAAGTA
Found at i:1728673 original size:23 final size:22
Alignment explanation
Indices: 1728647--1728695 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1728637 TTTTTTCCTT
1728647 TGCTATTTGATGCTTTTCTTTGC
1 TGCTA-TTGATGCTTTTCTTTGC
* * *
1728670 TGCTATTGCTGTTTTTGTTTGC
1 TGCTATTGATGCTTTTCTTTGC
1728692 TGCT
1 TGCT
1728696 GATATATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.06, C:0.16, G:0.20, T:0.57
Consensus pattern (22 bp):
TGCTATTGATGCTTTTCTTTGC
Found at i:1728849 original size:22 final size:22
Alignment explanation
Indices: 1728823--1728864 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
1728813 GTTGCTACCT
1728823 TGCTTGTTGGAGCTGCTATTCG
1 TGCTTGTTGGAGCTGCTATTCG
1728845 TGCTTGTTGGAGCTGCTATT
1 TGCTTGTTGGAGCTGCTATT
1728865 GTTTCTGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.10, C:0.17, G:0.31, T:0.43
Consensus pattern (22 bp):
TGCTTGTTGGAGCTGCTATTCG
Found at i:1729468 original size:23 final size:24
Alignment explanation
Indices: 1729441--1729494 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
1729431 ATGCATTTCA
* *
1729441 TGATTTTTTTTTA-TTTTATTATT
1 TGATTTTTATTAATTTTTATTATT
*
1729464 TGATTTTTATTAATTTTTATTTTT
1 TGATTTTTATTAATTTTTATTATT
*
1729488 TTATTTT
1 TGATTTT
1729495 CGATTTCTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.78
Consensus pattern (24 bp):
TGATTTTTATTAATTTTTATTATT
Found at i:1729483 original size:21 final size:22
Alignment explanation
Indices: 1729445--1729485 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1729435 ATTTCATGAT
* *
1729445 TTTTTTTTATTTTATTATTTGA
1 TTTTTATTAATTTATTATTTGA
1729467 TTTTTATTAATTT-TTATTT
1 TTTTTATTAATTTATTATTT
1729486 TTTTATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTTTATTAATTTATTATTTGA
Found at i:1730207 original size:85 final size:84
Alignment explanation
Indices: 1730053--1730211 Score: 210
Period size: 85 Copynumber: 1.9 Consensus size: 84
1730043 AGGGTAGAAA
* * * * * *
1730053 AGTCTCCAGGATCAAAGTTGACAAGCAGACTGAGGGTAGGAAAGTCTCTAGGGACGAAGCCGACA
1 AGTCTCCAGGATCAAAGTCGACAAGCAGACTAAGGGTAGAAAAGTCTCCAAGGACAAAGCCGACA
1730118 AGCAGACTTTAAATGAGGT
66 AGCAGACTTTAAATGAGGT
* * * * *
1730137 AGTCTCTAGGGTCAAAGTCGATAGGCAGACTAAGGGATAGAAAAGTCTCCAAGGTCAAAGCCGAC
1 AGTCTCCAGGATCAAAGTCGACAAGCAGACTAAGGG-TAGAAAAGTCTCCAAGGACAAAGCCGAC
1730202 AAGCAGACTT
65 AAGCAGACTT
1730212 AGGGATAGGA
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
84 30 0.48
85 33 0.52
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.18
Consensus pattern (84 bp):
AGTCTCCAGGATCAAAGTCGACAAGCAGACTAAGGGTAGAAAAGTCTCCAAGGACAAAGCCGACA
AGCAGACTTTAAATGAGGT
Found at i:1730258 original size:128 final size:128
Alignment explanation
Indices: 1729983--1730338 Score: 443
Period size: 128 Copynumber: 2.8 Consensus size: 128
1729973 TCCCGGGTCA
* * * * * *
1729983 AAGCCGACAGGTAAACTTTAGATAAGATAGTCTCCAAGGTCAAAGTCGACAGGCAGATTAAGGG-
1 AAGCCGACAGGTAGACTTTAAATGAGGTAGTCTCCAGGGTCAAAGTCGACAGGCAGACTAAGGGA
** * *
1730047 TAGAAAAGTCTCC-AGGATCAAAGTTGACAAGCAGACTGAGGGTAGGAAAGTCTCTAGGGACG
66 TAGAAAAGTCTCCAAGGATCAAAGCCGACAAGCAGACTGAGGGTAGGAAAATCTCTAAGGACG
* * * *
1730109 AAGCCGACAAGCAGACTTTAAATGAGGTAGTCTCTAGGGTCAAAGTCGATAGGCAGACTAAGGGA
1 AAGCCGACAGGTAGACTTTAAATGAGGTAGTCTCCAGGGTCAAAGTCGACAGGCAGACTAAGGGA
*
1730174 TAGAAAAGTCTCCAAGG-TCAAAGCCGACAAGCAGACTTAGGGATAGGAAAATCTCTAAGGACG
66 TAGAAAAGTCTCCAAGGATCAAAGCCGACAAGCAGACTGAGGG-TAGGAAAATCTCTAAGGACG
* * * * *
1730237 AAGCTGACAGGTAGACTTTAAATGAGGTAGTCTCCAGGGTCAAAGCCGACAAGTAGACTTAGGGA
1 AAGCCGACAGGTAGACTTTAAATGAGGTAGTCTCCAGGGTCAAAGTCGACAGGCAGACTAAGGGA
* * * *
1730302 TA-AGAAAGTCTCCAGGGAT-GAAGCCGGCAGGCAGACT
66 TAGA-AAAGTCTCCAAGGATCAAAGCCGACAAGCAGACT
1730339 TTAAATGAGG
Statistics
Matches: 197, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
126 54 0.27
127 36 0.18
128 106 0.54
129 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.18
Consensus pattern (128 bp):
AAGCCGACAGGTAGACTTTAAATGAGGTAGTCTCCAGGGTCAAAGTCGACAGGCAGACTAAGGGA
TAGAAAAGTCTCCAAGGATCAAAGCCGACAAGCAGACTGAGGGTAGGAAAATCTCTAAGGACG
Found at i:1730294 original size:42 final size:42
Alignment explanation
Indices: 1729971--1731179 Score: 550
Period size: 42 Copynumber: 28.7 Consensus size: 42
1729961 AAGAAAAAAT
* * * * * *
1729971 TCTCCCGGGTCAAAGCCGACAGGTAAACTTTAGATAAGATAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATGAGGTAG
* * ** **
1730013 TCTCCAAGGTCAAAGTCGACAGGCAGA--TTAAGGGTAGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATG-AG-GTAG
* ** * * ** *
1730055 TCTCCAGGATCAAAGTTGACAAGCAGAC--TGAGGGTAGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATG-AGG-TAG
* * * *
1730097 TCTCTAGGGACGAAGCCGACAAGCAGACTTTAAATGAGGTAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATGAGGTAG
* * * **
1730139 TCTCTAGGGTCAAAGTCGATAGGCAGAC--TAAGGGAT-AGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAA---ATGAG-GTAG
* * * * *
1730182 TCTCCAAGGTCAAAGCCGACAAGCAGAC-TTAGGGAT-AGGAAAA
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTA--AATGAGG-TAG
* * * * * *
1730225 TCTCTAAGGACGAAGCTGACAGGTAGACTTTAAATGAGGTAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATGAGGTAG
* * * * **
1730267 TCTCCAGGGTCAAAGCCGACAAGTAGAC-TTAGGGATAAGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTA--AATGAGGTAG
* * * *
1730310 TCTCCAGGGAT-GAAGCCGGCAGGCAGACTTTAAATGAGGCAA
1 TCTCCAGGG-TCAAAGCCGACAGGCAGACTTTAAATGAGGTAG
* * * *
1730352 TCTCCAGGGTCAAAGTCAATAGGCAGACTTTAGATTG-GGTAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTA-AATGAGGTAG
* * * * *
1730394 TCTCTAGGGTCAAAGCCGACAAGCAAACTTTAGA-GGGGATAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATGAGG-TAG
* * ** ** **
1730436 TCACTAGGGTCAAAGCTAACAGGCAGAC--TAAGGGTAGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATG-AG-GTAG
* * * * *
1730478 TCTCCAAGATCAAAGCCAACAGGTAGAC-TTAAGGAT-AGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAA--ATGAGG-TAG
* * *
1730521 TCTCCAAGGACAAAGCCGA-TGTGCAGACTTTAAATGAGGTAG
1 TCTCCAGGGTCAAAGCCGACAG-GCAGACTTTAAATGAGGTAG
* * * * *
1730563 TTTCCAAGGTCAAAGCCGATAGGCAGACTTTAGATAAGGTAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATGAGGTAG
* * * * * *
1730605 TTTTCAGGGTCAAAACCGACAGACAGACTTTAGATGGGGTAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATGAGGTAG
* * * *
1730647 TCTCTAGGGTCAAAGCCGACAGACAGACTTTAGATGGGGTAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATGAGGTAG
* * *
1730689 TCTCTAGGGTCAAAGCCGACAAGCAGACTTTAGATGAGGTAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATGAGGTAG
* * * * * *
1730731 TCTCCAAGGTAAAAGCCGACAGACATACTTTAGATGGGGTAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATGAGGTAG
* * *** * ** **
1730773 TCTCTAGGGTCAGAGCCGACAAAAAGAC--TGAGGGTAGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATG-AG-GTAG
* * * * * * *
1730815 CCTCTAGAGTCAAAGCTGACAGGTAGAC-TTAGGGAT-AGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTA--AATGAGG-TAG
* * * * * * *
1730858 TCTCTAGGGACAAAGCCAATAGGCAGATTTTGAATGAGGCAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATGAGGTAG
* * *
1730900 TCTCTAGGGTCAAAGCCGACAGGTAGACTTAAAATGAGGTAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATGAGGTAG
* ** *
1730942 TCTCCAAGGTCAAAGCCGACAGGCAGAC--TAAGGGTAGGAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATG-AGG-TAG
* * *
1730984 -CTCCAAGGTCAAAGCTGACAGGCAGACTTTAAATGAGGCAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATGAGGTAG
* * * * *
1731025 TCTCCAGGGTCAAAGCCGATAGGCAGACTTAAAATAAGGCAA
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATGAGGTAG
* * * * * **
1731067 TCTCCAAGGTCAAAGACAACAGACAGAC--T-GATGGTAGAAAAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAAT-G-AG-GTAG
* * * *
1731109 TCTCTAGGGTCAAAGCCGATAGGTAGACTTTAGATG-GAGTAG
1 TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATGAG-GTAG
* * *
1731151 TCTCCAAGGTCCAAGCCGACAGGTAGACT
1 TCTCCAGGGTCAAAGCCGACAGGCAGACT
1731180 GAGGGTATAA
Statistics
Matches: 891, Mismatches: 222, Indels: 108
0.73 0.18 0.09
Matches are distributed among these distances:
39 2 0.00
40 14 0.02
41 43 0.05
42 651 0.73
43 158 0.18
44 20 0.02
45 3 0.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (42 bp):
TCTCCAGGGTCAAAGCCGACAGGCAGACTTTAAATGAGGTAG
Found at i:1730525 original size:43 final size:43
Alignment explanation
Indices: 1730445--1730537 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
1730435 GTCACTAGGG
* *
1730445 TCAAAGCTAACAGGCAGACTAAGGGTAGAAAAGTCTCCAA-GA
1 TCAAAGCCAACAGGCAGACTAAGGATAGAAAAGTCTCCAAGGA
* *
1730487 TCAAAGCCAACAGGTAGACTTAAGGATAGGAAAGTCTCCAAGGA
1 TCAAAGCCAACAGGCAGAC-TAAGGATAGAAAAGTCTCCAAGGA
1730531 -CAAAGCC
1 TCAAAGCC
1730538 GATGTGCAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
42 17 0.38
43 26 0.58
44 2 0.04
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (43 bp):
TCAAAGCCAACAGGCAGACTAAGGATAGAAAAGTCTCCAAGGA
Found at i:1730549 original size:43 final size:42
Alignment explanation
Indices: 1730457--1730592 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 42
1730447 AAAGCTAACA
* * * *
1730457 GGCAGAC-TAAGGGTAGAAAAGTCTCCAA-GATCAAAGCCAACA
1 GGCAGACTTAAGGATAGGAAAGTCTCCAAGGA-CAAAGCCGA-T
*
1730499 GGTAGACTTAAGGATAGGAAAGTCTCCAAGGACAAAGCCGAT
1 GGCAGACTTAAGGATAGGAAAGTCTCCAAGGACAAAGCCGAT
* * *
1730541 GTGCAGACTTTAA--ATGAGG-TAGTTTCCAAGGTCAAAGCCGAT
1 G-GCAGAC-TTAAGGAT-AGGAAAGTCTCCAAGGACAAAGCCGAT
1730583 AGGCAGACTT
1 -GGCAGACTT
1730593 TAGATAAGGT
Statistics
Matches: 79, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
41 2 0.03
42 35 0.44
43 36 0.46
44 6 0.08
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.18
Consensus pattern (42 bp):
GGCAGACTTAAGGATAGGAAAGTCTCCAAGGACAAAGCCGAT
Found at i:1730549 original size:211 final size:209
Alignment explanation
Indices: 1729977--1730675 Score: 662
Period size: 211 Copynumber: 3.3 Consensus size: 209
1729967 AAATTCTCCC
* * *** * *
1729977 GGGTCAAAGCCGACAGGTAAACTTTAGATAAGATAGTCTCCAAGGTCAAAG-TCGACAGGCAGAT
1 GGGTCAAAGCCGACAAGCAAACTTTAGAGGGGATAGTCTCTAAGGTCAAAGCT-GACAGGCAGAC
** * * * *
1730041 TAAGGGTAGAAAAGTCTCCAGGATCAAAGTTGACAAGCAGAC-TGAGGGTAGGAAAGTCTCTAGG
65 TAAGGGTAGAAAAGTCTCCAGGATCAAAGCCGACAAGTAGACTTAAGGATAGGAAAGTCTCCAGG
* * *
1730105 GACGAAGCCGACAAGCAGACTTTAAATGAGGTAGTCTCTAGGGTCAAAGTCGATAGGCAGAC-TA
130 GACGAAGCCG--AGGCAGACTTTAAATGAGGTAGTCTCCAGGGTCAAAGTCGATAGGCAGACTTT
*** *
1730169 AGGGATAGAAAAGTCTCCA
193 A--GATAGGGTAGTCTCTA
* * * * * * *
1730188 AGGTCAAAGCCGACAAGCAGAC-TTAG-GGATAGGAAAATCTCTAAGGACGAAGCTGACAGGTAG
1 GGGTCAAAGCCGACAAGCAAACTTTAGAGG---GGATAGTCTCTAAGGTCAAAGCTGACAGGCAG
** ** * * *
1730251 ACTTTAAATG-AG-GTAGTCTCCAGGGTCAAAGCCGACAAGTAGACTTAGGGATAAGAAAGTCTC
63 AC--TAAGGGTAGAAAAGTCTCCAGGATCAAAGCCGACAAGTAGACTTAAGGATAGGAAAGTCTC
* * * *
1730314 CAGGGATGAAGCCGGCAGGCAGACTTTAAATGAGGCAATCTCCAGGGTCAAAGTCAATAGGCAGA
126 CAGGGACGAAGCC-G-AGGCAGACTTTAAATGAGGTAGTCTCCAGGGTCAAAGTCGATAGGCAGA
*
1730379 CTTTAGATTGGGTAGTCTCTA
189 CTTTAGATAGGGTAGTCTCTA
* * *
1730400 GGGTCAAAGCCGACAAGCAAACTTTAGAGGGGATAGTCACTAGGGTCAAAGCTAACAGGCAGACT
1 GGGTCAAAGCCGACAAGCAAACTTTAGAGGGGATAGTCTCTAAGGTCAAAGCTGACAGGCAGACT
* * * *
1730465 AAGGGTAGAAAAGTCTCCAAGATCAAAGCCAACAGGTAGACTTAAGGATAGGAAAGTCTCCAAGG
66 AAGGGTAGAAAAGTCTCCAGGATCAAAGCCGACAAGTAGACTTAAGGATAGGAAAGTCTCCAGGG
* * * *
1730530 ACAAAGCCGATGTGCAGACTTTAAATGAGGTAGTTTCCAAGGTCAAAGCCGATAGGCAGACTTTA
131 ACGAAGCCGA-G-GCAGACTTTAAATGAGGTAGTCTCCAGGGTCAAAGTCGATAGGCAGACTTTA
* *
1730595 GATAAGGTAGT-TTTCA
194 GATAGGGTAGTCTCT-A
* * * * *
1730611 GGGTCAAAACCGAC-AGACAGACTTTAGATGGGG-TAGTCTCTAGGGTCAAAGCCGACAGACAGA
1 GGGTCAAAGCCGACAAG-CAAACTTTAGA-GGGGATAGTCTCTAAGGTCAAAGCTGACAGGCAGA
1730674 CT
64 CT
1730676 TTAGATGGGG
Statistics
Matches: 393, Mismatches: 77, Indels: 36
0.78 0.15 0.07
Matches are distributed among these distances:
209 5 0.01
210 12 0.03
211 204 0.52
212 85 0.22
213 78 0.20
214 9 0.02
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (209 bp):
GGGTCAAAGCCGACAAGCAAACTTTAGAGGGGATAGTCTCTAAGGTCAAAGCTGACAGGCAGACT
AAGGGTAGAAAAGTCTCCAGGATCAAAGCCGACAAGTAGACTTAAGGATAGGAAAGTCTCCAGGG
ACGAAGCCGAGGCAGACTTTAAATGAGGTAGTCTCCAGGGTCAAAGTCGATAGGCAGACTTTAGA
TAGGGTAGTCTCTA
Found at i:1730704 original size:211 final size:208
Alignment explanation
Indices: 1730249--1730749 Score: 537
Period size: 211 Copynumber: 2.4 Consensus size: 208
1730239 GCTGACAGGT
* * * *
1730249 AGACTTTAAATGAGGTAGTCTCCAGGGTCAAAGCCGACAAGTAGACTTAGGGATAAGAAAGTCTC
1 AGACTTTAGATGGGGTAGTCTCCAGGGTCAAAGCCGACAAGTAGACTTAAGGATAGGAAAGTCTC
* * * *
1730314 CAGGGATGAAGCCGGCAGGCAGACTTTAAATGAGGCAATCTCCAGGGTCAAAGTCAATAGGCAGA
66 CAAGGA-AAAGCC-G-AGGCAGACTTTAAATGAGGCAATCTCCAAGGTCAAAGCCAATAGGCAGA
** *
1730379 CTTTAGATTGGGTAGTCTCTAGGGTCAAAGCCGACAAGCAAACTTTAGAGGGGATAGTCACTAGG
128 CTTTAGATAAGGTAGTCTCTAGGGTCAAAACCGACAAGCAAACTTTAGAGGGGATAGTCACTAGG
* *
1730444 GTCAAAGCTAACAGGC
193 GTCAAAGCCAACAGAC
* * * *** * * * *
1730460 AGAC-TAAGGGTAGAAAAGTCTCCAAGATCAAAGCCAACAGGTAGACTTAAGGATAGGAAAGTCT
1 AGACTTTA-GATGGGGTAGTCTCCAGGGTCAAAGCCGACAAGTAGACTTAAGGATAGGAAAGTCT
* * * *
1730524 CCAAGGACAAAGCCGATGTGCAGACTTTAAATGAGGTAGTTTCCAAGGTCAAAGCCGATAGGCAG
65 CCAAGGA-AAAGCCGA-G-GCAGACTTTAAATGAGGCAATCTCCAAGGTCAAAGCCAATAGGCAG
* * *
1730589 ACTTTAGATAAGGTAGT-TTTCAGGGTCAAAACCGAC-AGACAGACTTTAGATGGGG-TAGTCTC
127 ACTTTAGATAAGGTAGTCTCT-AGGGTCAAAACCGACAAG-CAAACTTTAGA-GGGGATAGTCAC
*
1730651 TAGGGTCAAAGCCGACAGAC
189 TAGGGTCAAAGCCAACAGAC
* * * *
1730671 AGACTTTAGATGGGGTAGTCTCTAGGGTCAAAGCCGACAAGCAGACTTTA-GATGAGG-TAGTCT
1 AGACTTTAGATGGGGTAGTCTCCAGGGTCAAAGCCGACAAGTAGACTTAAGGAT-AGGAAAGTCT
1730734 CCAAGGTAAAAGCCGA
65 CCAAGG-AAAAGCCGA
1730750 CAGACATACT
Statistics
Matches: 235, Mismatches: 46, Indels: 19
0.78 0.15 0.06
Matches are distributed among these distances:
209 1 0.00
210 30 0.13
211 198 0.84
212 6 0.03
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (208 bp):
AGACTTTAGATGGGGTAGTCTCCAGGGTCAAAGCCGACAAGTAGACTTAAGGATAGGAAAGTCTC
CAAGGAAAAGCCGAGGCAGACTTTAAATGAGGCAATCTCCAAGGTCAAAGCCAATAGGCAGACTT
TAGATAAGGTAGTCTCTAGGGTCAAAACCGACAAGCAAACTTTAGAGGGGATAGTCACTAGGGTC
AAAGCCAACAGAC
Found at i:1730748 original size:337 final size:336
Alignment explanation
Indices: 1730237--1731091 Score: 898
Period size: 337 Copynumber: 2.5 Consensus size: 336
1730227 TCTAAGGACG
* * * * * * * *
1730237 AAGCTGACAGGTAGACTTTAAATGAGGTAGTCTCCAGGGTCAAAGCCGACA-AGTAGACTTAGGG
1 AAGCCGACAGGCAGACTTAAAATAAGGTAGTCTCCAAGGTCAAAACCGACAGA-CAGAC-TAAGG
* * * * *
1730301 ATAAGAAAGTCTCCAGGGAT-GAAGCCGGCAGGCAGACTTTAAATGAGGCAATCTCCAGGGTCAA
64 ATAGGAAAG-CTCCAAGG-TCAAAGCCGACAGGCAGACTTTAAATGAGGCAGTCTCCAGGGTCAA
* * * *
1730365 AGTCAATAGGCAGACTTTAGATTG-GGTAGTCTCTAGGGTCAAAGCCGACA-AGCAAACTTTAGA
127 AGCCGATAGGCAGACTTTAGA-TGAGGTAGTCTCCAAGGTCAAAGCCGACAGA-CAAACTTTAGA
* *** *
1730428 -GGGGATAGTCACTAGGGTCAAAGCTAACAGGCAGACTAAGGGTAGAAAAGTCTCCAAGA-TCAA
190 TGGGG-TAGTCACTAGGGTCAAAGCCAACAAAAAGACTAAGGGTAGAAAAGCCT-CAAGAGTCAA
*
1730491 AGCCAACAGGTAGACTTAAGGATAGGAAAGTCTCCAAGGACAAAGCCGAT-GTGCAGACTTTAAA
253 AGCCAACAGGTAGACTTAAGGATAGGAAAGTCTCCAAGGACAAAGCCAATAG-GCAGACTTTAAA
* *
1730555 TGAGGTAGTTTCCAAGGTCA
317 TGAGGCAGTCTCCAAGGTCA
* * * * * * *
1730575 AAGCCGATAGGCAGACTTTAGATAAGGTAGTTTTCAGGGTCAAAACCGACAGACAGACTTTA-GA
1 AAGCCGACAGGCAGACTTAAAATAAGGTAGTCTCCAAGGTCAAAACCGACAGACAGAC-TAAGGA
* ** * * * * * * *
1730639 TGGGGTAGTCTCTAGGGTCAAAGCCGACAGACAGACTTTAGATGGGGTAGTCTCTAGGGTCAAAG
65 TAGGAAAG-CTCCAAGGTCAAAGCCGACAGGCAGACTTTAAATGAGGCAGTCTCCAGGGTCAAAG
* * * *
1730704 CCGACAAGCAGACTTTAGATGAGGTAGTCTCCAAGGTAAAAGCCGACAGACATACTTTAGATGGG
129 CCGATAGGCAGACTTTAGATGAGGTAGTCTCCAAGGTCAAAGCCGACAGACAAACTTTAGATGGG
* * * * * **
1730769 GTAGTCTCTAGGGTCAGAGCCGACAAAAAGACTGAGGGTAGAAAAGCCTCTAGAGTCAAAGCTGA
194 GTAGTCACTAGGGTCAAAGCCAACAAAAAGACTAAGGGTAGAAAAGCCTCAAGAGTCAAAGCCAA
* * * * *
1730834 CAGGTAGACTTAGGGATAGGAAAGTCTCTAGGGACAAAGCCAATAGGCAGATTTTGAATGAGGCA
259 CAGGTAGACTTAAGGATAGGAAAGTCTCCAAGGACAAAGCCAATAGGCAGACTTTAAATGAGGCA
* *
1730899 GTCTCTAGGGTCA
324 GTCTCCAAGGTCA
* * * * *
1730912 AAGCCGACAGGTAGACTTAAAATGAGGTAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGT
1 AAGCCGACAGGCAGACTTAAAATAAGGTAGTCTCCAAGGTCAAAACCGACAGACAGACTAAGGAT
*
1730977 AGGAAAGCTCCAAGGTCAAAGCTGACAGGCAGACTTTAAATGAGGCAGTCTCCAGGGTCAAAGCC
66 AGGAAAGCTCCAAGGTCAAAGCCGACAGGCAGACTTTAAATGAGGCAGTCTCCAGGGTCAAAGCC
* * * * * * *
1731042 GATAGGCAGACTTAAAATAAGGCAATCTCCAAGGTCAAAGACAACAGACA
131 GATAGGCAGACTTTAGATGAGGTAGTCTCCAAGGTCAAAGCCGACAGACA
1731092 GACTGATGGT
Statistics
Matches: 422, Mismatches: 87, Indels: 18
0.80 0.17 0.03
Matches are distributed among these distances:
336 99 0.23
337 267 0.63
338 55 0.13
339 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (336 bp):
AAGCCGACAGGCAGACTTAAAATAAGGTAGTCTCCAAGGTCAAAACCGACAGACAGACTAAGGAT
AGGAAAGCTCCAAGGTCAAAGCCGACAGGCAGACTTTAAATGAGGCAGTCTCCAGGGTCAAAGCC
GATAGGCAGACTTTAGATGAGGTAGTCTCCAAGGTCAAAGCCGACAGACAAACTTTAGATGGGGT
AGTCACTAGGGTCAAAGCCAACAAAAAGACTAAGGGTAGAAAAGCCTCAAGAGTCAAAGCCAACA
GGTAGACTTAAGGATAGGAAAGTCTCCAAGGACAAAGCCAATAGGCAGACTTTAAATGAGGCAGT
CTCCAAGGTCA
Found at i:1732960 original size:14 final size:15
Alignment explanation
Indices: 1732920--1732968 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
1732910 ATTTTTTTGA
1732920 TTTTATTATTTAATTT
1 TTTTATT-TTTAATTT
1732936 TTATTAATTTTT-ATTT
1 TT-TT-ATTTTTAATTT
1732952 TTTTATTTTTTAATTT
1 TTTTA-TTTTTAATTT
1732968 T
1 T
1732969 CGATTTCTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 1 0.03
15 7 0.24
16 13 0.45
17 5 0.17
18 3 0.10
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTATTTTTAATTT
Found at i:1733900 original size:127 final size:127
Alignment explanation
Indices: 1733744--1733977 Score: 387
Period size: 127 Copynumber: 1.8 Consensus size: 127
1733734 GAGTCTCTAG
* * *
1733744 GGTCAAAGCCGACAGGTAGACTTAGGGATAGGAAAGTCTCCAGGGATGAAGCCGATAGGCAGACT
1 GGTCAAAGCCGACAGGTAGACTTAGGGATAGGAAAGTCTCCAGGGATAAAGCCGACAGACAGACT
1733809 TTAAATGAGGCAATCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTTTCCAA
66 TTAAATGAGGCAATCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTTTCCAA
** *
1733871 GGTCAAAGCCGACAGGTAGACTTAGGGATAGGAAAGTCTCTTGGGATAAAGTCGACAGACAGACT
1 GGTCAAAGCCGACAGGTAGACTTAGGGATAGGAAAGTCTCCAGGGATAAAGCCGACAGACAGACT
* * *
1733936 TTAATTGAGGCAGTCTCCAGGGTCAAAGCTGACAGGCAGACT
66 TTAAATGAGGCAATCTCCAGGGTCAAAGCCGACAGGCAGACT
1733978 TAAAATGAGG
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
127 98 1.00
ACGTcount: A:0.33, C:0.19, G:0.30, T:0.18
Consensus pattern (127 bp):
GGTCAAAGCCGACAGGTAGACTTAGGGATAGGAAAGTCTCCAGGGATAAAGCCGACAGACAGACT
TTAAATGAGGCAATCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGTAGAAAAGTTTCCAA
Found at i:1733953 original size:169 final size:168
Alignment explanation
Indices: 1733449--1734481 Score: 603
Period size: 169 Copynumber: 6.1 Consensus size: 168
1733439 AAATTCTCTC
* * * * * * *
1733449 GGGTCAAAGTCGACAAGCAAACTTTAGATGAGGCAGTCTCCAGGATTAAAGTCGACAGGCAGACT
1 GGGTCAAAGCCGACAGGCAGACTTTAAATGAGGCAATCTCCAGGATCAAAGCCGACAGGCAGACT
* * *
1733514 GAGGGTAGAAAAGTCTCCAAGGTCAAAGCCGATAGGCAGACTGAGGG-TAGGAAAGTCTCTAGGG
66 AAGGGTAGAAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAGGGATAGGAAAGTCTCTAGGG
* *
1733578 TCTAAGCCGACAGGCAGACTTTAAATGAGGCAGTCTCTA
131 TCAAAGCCGACAGGCAGACTTT-AATGAGGCAGTCTCCA
** *
1733617 GGGTCAAAGCCGACAGGCAGAC--TAAGGGAT-AGAAAAGTCTCCAAGATCAAAGCCGACAGGCA
1 GGGTCAAAGCCGACAGGCAGACTTTAA---ATGAGGCAA-TCTCCAGGATCAAAGCCGACAGGCA
* * * * * * * * *
1733679 GACTTAGGGATAGGACAGTCT-CTAGTGACGAAGTCGACAGGCAGACTTTA---A-ATGAGAGTC
62 GACTAAGGG-TAGAAAAGTCTCCAAG-GTCAAAGCCGACAGGCAGAC-TTAGGGATAGGAAAGTC
* *
1733739 TCTAGGGTCAAAGCCGACAGGTAGAC-TTAGGGAT-AGGAAAGTCTCCA
124 TCTAGGGTCAAAGCCGACAGGCAGACTTTA---ATGAGG-CAGTCTCCA
* * *
1733786 GGGAT-GAAGCCGATAGGCAGACTTTAAATGAGGCAATCTCCAGGGTCAAAGCCGACAGGCAGAC
1 GGG-TCAAAGCCGACAGGCAGACTTTAAATGAGGCAATCTCCAGGATCAAAGCCGACAGGCAGAC
* * *
1733850 TAAGGGTAGAAAAGTTTCCAAGGTCAAAGCCGACAGGTAGACTTAGGGATAGGAAAGTCTCTTGG
65 TAAGGGTAGAAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAGGGATAGGAAAGTCTCTAGG
* *
1733915 GAT-AAAGTCGACAGACAGACTTTAATTGAGGCAGTCTCCA
130 G-TCAAAGCCGACAGGCAGACTTTAA-TGAGGCAGTCTCCA
* * * * **
1733955 GGGTCAAAGCTGACAGGCAGACTTAAAATGAGGCAGTCTCCAGGGTCAAAGCTAACAGGCAGACT
1 GGGTCAAAGCCGACAGGCAGACTTTAAATGAGGCAATCTCCAGGATCAAAGCCGACAGGCAGAC-
* * *** * * * * **
1734020 TTA-GATAGGGTATTCTTCAAGGTCAAAGTCGATAGGCAGACTTTA--GATAGGGTAGTCTCTAG
65 TAAGGGTAGAAAAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TTAGGGATAGGAAAGTCTCTAG
* * * *
1734082 GGTCAAAGCCGATAGGTAGACTTTAGATGGGGTAGTCTCCA
129 GGTCAAAGCCGACAGGCAGACTTTA-ATGAGGCAGTCTCCA
* * * * * ** ** * *
1734123 GGGTCAAAGCTGACATGTAAAC--TGAGGGTAGAAAAATCTTCAAGG-TCAAAGCCGACAGGTAG
1 GGGTCAAAGCCGACAGGCAGACTTTAAATG-AG-GCAATC-TCCAGGATCAAAGCCGACAGGCAG
* * * * * * *
1734185 ACTTAGGGATAGGAAAGTCTCCAGGGACAAAGCCAATAGGCAGACTTTA---A-ATGAAGTAGTC
63 ACTAAGGG-TAGAAAAGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TTAGGGATAGGAA--AGTC
* * * * * * * ** *
1734246 TCTAAGGTCAAAGTCGACAGACA-AGTTGAGGGTAAGAAAGTCTCTA
124 TCTAGGGTCAAAGCCGACAGGCAGACTTTA--ATGAGGCAGTCTCCA
* * * * * * * *
1734292 AGGTCAAAGCTGACAGGTAGACTTTAAATGA-GCAGTCTCTAGGGTCAAAGCTGACAAGCAGACT
1 GGGTCAAAGCCGACAGGCAGACTTTAAATGAGGCAATCTCCAGGATCAAAGCCGACAGGCAGAC-
* ** * * * * * * *
1734356 TAA-AGTAAGGCAA-TCTCTAAGGTCAAAGCCAACAGACAGACTGAAGG-TAGGAAAGTCTCCAT
65 TAAGGGT-AGAAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAGGGATAGGAAAGTCTCTAG
* * * * * *
1734418 GGTCAAAGCCAAAAAGTAGACTTTAGATG-GGATAGTCTCTA
129 GGTCAAAGCCGACAGGCAGACTTTA-ATGAGG-CAGTCTCCA
* *
1734459 AGGTCAAAGCCGATAGGCAGACT
1 GGGTCAAAGCCGACAGGCAGACT
1734482 GCGGGTATAA
Statistics
Matches: 663, Mismatches: 153, Indels: 99
0.72 0.17 0.11
Matches are distributed among these distances:
166 11 0.02
167 112 0.17
168 212 0.32
169 254 0.38
170 62 0.09
171 12 0.02
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (168 bp):
GGGTCAAAGCCGACAGGCAGACTTTAAATGAGGCAATCTCCAGGATCAAAGCCGACAGGCAGACT
AAGGGTAGAAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTTAGGGATAGGAAAGTCTCTAGGG
TCAAAGCCGACAGGCAGACTTTAATGAGGCAGTCTCCA
Found at i:1734130 original size:253 final size:250
Alignment explanation
Indices: 1733453--1734356 Score: 725
Period size: 253 Copynumber: 3.6 Consensus size: 250
1733443 TCTCTCGGGT
* * * * * * * * *
1733453 CAAAGTCGACAAGCAAACTTTAGATGAGGCAGTCTCCAGGATTAAAGTCGACAGGCAGACTGAGG
1 CAAAGTCGACAGGCAGACTTAAAATGA-G-AGTCTCCAGGGTCAAAGCCAACAGGCAGACTTAGG
* * * * * *
1733518 GTAGAAAAGTCTCCAAGGTCAAAGCCGATAGGCAGAC-TGAGGGTAGGAAAGTCTCTAGGGTCTA
64 ATAGGAAAGTCTCCAAGGTCAAAGCCGATAGGCAGACTTTA-GATAGGGAAGTCTCTAGGGTCAA
* * * *
1733582 AGCCGACAGGCAGACTTTAAATGAGGCAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAGGGAT
128 AGCCGACAGGCAGACTTTAGATGGGGAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAT
* * *
1733647 AGAAAAGTCTCCAAGATCAAAGCCGACAGGCAGACTTAGGGATAGGACAGTCTCTAGTGA
193 AGAAAAGTCTCCAAGATCAAAGCCGACAGACAGACTTA--GATAGGACAGTCTCCAGGGA
* * * * *
1733707 CGAAGTCGACAGGCAGACTTTAAATGAGAGTCTCTAGGGTCAAAGCCGACAGGTAGACTTAGGGA
1 CAAAGTCGACAGGCAGACTTAAAATGAGAGTCTCCAGGGTCAAAGCCAACAGGCAGACTTA-GGA
* * * * *
1733772 TAGGAAAGTCTCCAGGGAT-GAAGCCGATAGGCAGACTTTAAATGAGGCAA-TCTCCAGGGTCAA
65 TAGGAAAGTCTCCAAGG-TCAAAGCCGATAGGCAGACTTTAGAT-AGGGAAGTCTCTAGGGTCAA
* * * ** * * * *
1733835 AGCCGACAGGCAGAC-TAAGGGTAGAAAAGTTTCCAAGGTCAAAGCCGACAGGTAGACTTAGGGA
128 AGCCGACAGGCAGACTTTA-GATGGGGAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGA
* *** * *
1733899 TAGGAAAGTCTCTTGGGAT-AAAGTCGACAGACAGACTTTA-ATTGAGG-CAGTCTCCAGGGT
192 TAGAAAAGTCTC-CAAGATCAAAGCCGACAGACAGAC-TTAGA-T-AGGACAGTCTCCAGGGA
*
1733959 CAAAG-CTGACAGGCAGACTTAAAATGAGGCAGTCTCCAGGGTCAAAGCTAACAGGCAGACTTTA
1 CAAAGTC-GACAGGCAGACTTAAAATGA-G-AGTCTCCAGGGTCAAAGCCAACAGGCAGAC-TTA
** * * * *
1734023 -GATAGGGTATTCTTCAAGGTCAAAGTCGATAGGCAGACTTTAGATAGGGTAGTCTCTAGGGTCA
62 GGATAGGAAAGTCTCCAAGGTCAAAGCCGATAGGCAGACTTTAGATAGGGAAGTCTCTAGGGTCA
* * * * * * * *
1734087 AAGCCGATAGGTAGACTTTAGATGGGGTAGTCTCCAGGGTCAAAGCTGACATGTAAACTGAGGG-
127 AAGCCGACAGGCAGACTTTAGATGGGGAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGA
* * * ** *
1734151 TAGAAAAATCTTCAAGGTCAAAGCCGACAGGTAGACTTAGGGATAGGAAAGTCTCCAGGGA
192 TAGAAAAGTCTCCAAGATCAAAGCCGACAGACAGACTTA--GATAGGACAGTCTCCAGGGA
* * * * * * * * * *
1734212 CAAAGCCAATAGGCAGACTTTAAATGAAGTAGTCTCTAAGGTCAAAGTCGACAGACA-AGTTGAG
1 CAAAGTCGACAGGCAGACTTAAAATG-AG-AGTCTCCAGGGTCAAAGCCAACAGGCAGACTT-AG
* * * * * * * * *
1734276 GGTAAGAAAGTCTCTAAGGTCAAAGCTGACAGGTAGACTTTAAAT-GAGCAGTCTCTAGGGTCAA
63 GATAGGAAAGTCTCCAAGGTCAAAGCCGATAGGCAGACTTTAGATAGGGAAGTCTCTAGGGTCAA
* *
1734340 AGCTGACAAGCAGACTT
128 AGCCGACAGGCAGACTT
1734357 AAAGTAAGGC
Statistics
Matches: 511, Mismatches: 114, Indels: 52
0.75 0.17 0.08
Matches are distributed among these distances:
251 9 0.02
252 126 0.25
253 305 0.60
254 68 0.13
255 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (250 bp):
CAAAGTCGACAGGCAGACTTAAAATGAGAGTCTCCAGGGTCAAAGCCAACAGGCAGACTTAGGAT
AGGAAAGTCTCCAAGGTCAAAGCCGATAGGCAGACTTTAGATAGGGAAGTCTCTAGGGTCAAAGC
CGACAGGCAGACTTTAGATGGGGAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGATAGA
AAAGTCTCCAAGATCAAAGCCGACAGACAGACTTAGATAGGACAGTCTCCAGGGA
Found at i:1734397 original size:83 final size:84
Alignment explanation
Indices: 1734197--1734397 Score: 205
Period size: 83 Copynumber: 2.4 Consensus size: 84
1734187 TTAGGGATAG
* * * * *
1734197 GAAAGTCTCCAGGGACAAAGCCAATAGGCAGACTTTAAATGAAGTAGTCTCTAAGGTCAAAGTCG
1 GAAAGTCTCTAAGGTCAAAGCCAACAGGCAGACTTTAAATGAAGCAGTCTCTAAGGTCAAAGTCG
* **
1734262 ACAGACAAGTTGAGGGTAA
66 ACAGACAACTTGAAAGTAA
** * *
1734281 GAAAGTCTCTAAGGTCAAAGCTGACAGGTAGACTTTAAATG-AGCAGTCTCTAGGGTCAAAG-CT
1 GAAAGTCTCTAAGGTCAAAGCCAACAGGCAGACTTTAAATGAAGCAGTCTCTAAGGTCAAAGTC-
1734344 GACA-AGCAGACTT-AAAGTAA
65 GACAGA-CA-ACTTGAAAGTAA
* *
1734364 GGCAA-TCTCTAAGGTCAAAGCCAACAGACAGACT
1 -GAAAGTCTCTAAGGTCAAAGCCAACAGGCAGACT
1734398 GAAGGTAGGA
Statistics
Matches: 96, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
82 2 0.02
83 54 0.56
84 40 0.42
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.19
Consensus pattern (84 bp):
GAAAGTCTCTAAGGTCAAAGCCAACAGGCAGACTTTAAATGAAGCAGTCTCTAAGGTCAAAGTCG
ACAGACAACTTGAAAGTAA
Found at i:1734481 original size:42 final size:42
Alignment explanation
Indices: 1733443--1734481 Score: 541
Period size: 42 Copynumber: 24.7 Consensus size: 42
1733433 AAGAAAAAAT
* * * * *
1733443 TCTCTCGGGTCAAAGTCGACAAGCAAACTTTAGATGAGG-CAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGAT-AGGAAAG
* * * * * * *
1733485 TCTCCAGGATTAAAGTCGACAGGCAGAC-TGAGGGTAGAAAAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTTTA-GATAGGAAAG
* * * * *
1733527 TCTCCAAGGTCAAAGCCGATAGGCAGAC-TGAGGGTAGGAAAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTTTA-GATAGGAAAG
* * *
1733569 TCTCTAGGGTCTAAGCCGACAGGCAGACTTTAAATGAGG-CAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGAT-AGGAAAG
* *
1733611 TCTCTAGGGTCAAAGCCGACAGGCAGAC-TAAGGGATAGAAAAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTTTA--GATAGGAAAG
* * * *
1733654 TCTCCAAGATCAAAGCCGACAGGCAGAC-TTAGGGATAGGACAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTTTA--GATAGGAAAG
* * * * * *
1733697 TCTCTAGTGACGAAGTCGACAGGCAGACTTTA-A-ATGAGAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAGGAAAG
*
1733737 TCTCTAGGGTCAAAGCCGACAGGTAGAC-TTAGGGATAGGAAAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTTTA--GATAGGAAAG
* * * * *
1733780 TCTCCAGGGAT-GAAGCCGATAGGCAGACTTTAAATGAGGCAA-
1 TCTCTAGGG-TCAAAGCCGACAGGCAGACTTTAGAT-AGGAAAG
* * * *
1733822 TCTCCAGGGTCAAAGCCGACAGGCAGAC-TAAGGGTAGAAAAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTTTA-GATAGGAAAG
* * * *
1733864 TTTCCAAGGTCAAAGCCGACAGGTAGAC-TTAGGGATAGGAAAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTTTA--GATAGGAAAG
* * * *
1733907 TCTCTTGGGAT-AAAGTCGACAGACAGACTTTA-ATTGAGG-CAG
1 TCTCTAGGG-TCAAAGCCGACAGGCAGACTTTAGA-T-AGGAAAG
* * * * *
1733949 TCTCCAGGGTCAAAGCTGACAGGCAGACTTAAAATGAGG-CAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGAT-AGGAAAG
* ** ** *
1733991 TCTCCAGGGTCAAAGCTAACAGGCAGACTTTAGATAGGGTAT
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAGGAAAG
* * * **
1734033 TCT-TCAAGGTCAAAGTCGATAGGCAGACTTTAGATAGGGTAG
1 TCTCT-AGGGTCAAAGCCGACAGGCAGACTTTAGATAGGAAAG
* * * **
1734075 TCTCTAGGGTCAAAGCCGATAGGTAGACTTTAGATGGGGTAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAGGAAAG
* * * * * * * * *
1734117 TCTCCAGGGTCAAAGCTGACATGTAAAC-TGAGGGTAGAAAAA
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTTTA-GATAGGAAAG
* *
1734159 TCT-TCAAGGTCAAAGCCGACAGGTAGAC-TTAGGGATAGGAAAG
1 TCTCT-AGGGTCAAAGCCGACAGGCAGACTTTA--GATAGGAAAG
* * * * *
1734202 TCTCCAGGGACAAAGCCAATAGGCAGACTTTA-A-ATGAAGTAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAGGAA--AG
* * * * * * *
1734244 TCTCTAAGGTCAAAGTCGACAGACA-AGTTGAGGGTAAGAAAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTTTA-GATAGGAAAG
* * * * *
1734286 TCTCTAAGGTCAAAGCTGACAGGTAGACTTTA-A-ATGAGCAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAGGA-AAG
* * * *
1734327 TCTCTAGGGTCAAAGCTGACAAGCAGAC-TTAAAGTAAGGCAA-
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGA-T-AGGAAAG
* * * ** *
1734369 TCTCTAAGGTCAAAGCCAACAGACAGACTGAAGGTAGGAAAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAGGAAAG
* * * * * * * *
1734411 TCTCCATGGTCAAAGCCAAAAAGTAGACTTTAGATGGGATAG
1 TCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAGGAAAG
* *
1734453 TCTCTAAGGTCAAAGCCGATAGGCAGACT
1 TCTCTAGGGTCAAAGCCGACAGGCAGACT
1734482 GCGGGTATAA
Statistics
Matches: 770, Mismatches: 181, Indels: 92
0.74 0.17 0.09
Matches are distributed among these distances:
39 3 0.00
40 38 0.05
41 59 0.08
42 483 0.63
43 167 0.22
44 20 0.03
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (42 bp):
TCTCTAGGGTCAAAGCCGACAGGCAGACTTTAGATAGGAAAG
Found at i:1748022 original size:17 final size:17
Alignment explanation
Indices: 1748000--1748034 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
1747990 CTCTTGCTAC
*
1748000 TGCTGTTACTTGGTATT
1 TGCTGTTACTTGCTATT
1748017 TGCTGTTACTTGCTATT
1 TGCTGTTACTTGCTATT
1748034 T
1 T
1748035 TGATTGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.54
Consensus pattern (17 bp):
TGCTGTTACTTGCTATT
Found at i:1748737 original size:14 final size:16
Alignment explanation
Indices: 1748709--1748747 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
1748699 TATTTTATTA
1748709 TTTGATTTTTATTAATT
1 TTTGA-TTTTATTAATT
1748726 TTT-ATTTT-TTAATT
1 TTTGATTTTATTAATT
1748740 TTTGATTT
1 TTTGATTT
1748748 CTACTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 9 0.43
15 8 0.38
16 1 0.05
17 3 0.14
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (16 bp):
TTTGATTTTATTAATT
Found at i:1748767 original size:31 final size:32
Alignment explanation
Indices: 1748699--1748767 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
1748689 TGATTTTTTT
* *
1748699 TATTTT-ATTATTTGATTTTTATTAATTTTTA
1 TATTTTAATTATTTGATTTCTATTAATTATTA
*
1748730 TTTTTTAATT-TTTGATTTCTACTT-ATTATTA
1 TATTTTAATTATTTGATTTCTA-TTAATTATTA
1748761 TATTTTA
1 TATTTTA
1748768 TATCAAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 27 0.84
32 5 0.16
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (32 bp):
TATTTTAATTATTTGATTTCTATTAATTATTA
Found at i:1756837 original size:22 final size:22
Alignment explanation
Indices: 1756789--1756847 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
1756779 TATTAAAAAT
*
1756789 TAATTTTATATTAATATTTATA
1 TAATTTTATATTAATATTTAAA
1756811 T-ATTTTATAATTAA-ATTTAAA
1 TAATTTTAT-ATTAATATTTAAA
*
1756832 TAATTTTTTTATTAAT
1 TAA-TTTTATATTAAT
1756848 TAAACATTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 14 0.45
22 12 0.39
23 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TAATTTTATATTAATATTTAAA
Found at i:1758883 original size:2 final size:2
Alignment explanation
Indices: 1758878--1758913 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
1758868 CTCTAAAACT
*
1758878 TA TA TA CA 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
1758914 ATAAACTGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1763951 original size:7 final size:7
Alignment explanation
Indices: 1763930--1763967 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
1763920 TTTATGGATC
1763930 CATTATA
1 CATTATA
1763937 CAATTATA
1 C-ATTATA
1763945 CATTATA
1 CATTATA
*
1763952 CATTCTA
1 CATTATA
1763959 CATTATA
1 CATTATA
1763966 CA
1 CA
1763968 ATTAACTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (7 bp):
CATTATA
Found at i:1771871 original size:20 final size:21
Alignment explanation
Indices: 1771848--1771891 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
1771838 TCTTGTATTA
*
1771848 ATACATTCACCTA-TGTATCG
1 ATACATTCACCTATTATATCG
*
1771868 ATACATTCACTTATTATATCG
1 ATACATTCACCTATTATATCG
1771889 ATA
1 ATA
1771892 TAATTGTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (21 bp):
ATACATTCACCTATTATATCG
Found at i:1772541 original size:49 final size:51
Alignment explanation
Indices: 1772488--1772806 Score: 177
Period size: 52 Copynumber: 6.3 Consensus size: 51
1772478 CCAGTGTTTA
* *
1772488 GATTCAAGGCCTACGACACCGGACTT-A-ATGATAAGAATGCCAATGTGCT
1 GATTCAAGGCCAACGACACCGGACTTAAGATGAGAAGAATGCCAATGTGCT
** *
1772537 GATTCATA-GCCAACGACATTGGACTTGAAGATGAGAAGAATGCCAATGTGTT
1 GATTCA-AGGCCAACGACACCGGACTT-AAGATGAGAAGAATGCCAATGTGCT
* * * * * * *
1772589 GATTCCAGGCTAGCG--A-CGGACTTAAAAATGAGAAAAATGCCAATATGTT
1 GATTCAAGGCCAACGACACCGGACTT-AAGATGAGAAGAATGCCAATGTGCT
* ** * * * *
1772638 GATTTAAGGCCAACGACATTAGG-CTTAAAATGATAA-AGGTGCCAATATGCT
1 GATTCAAGGCCAACGACA-CCGGACTTAAGATGAGAAGA-ATGCCAATGTGCT
* * * * ** ** * *
1772689 GATTCAAGGCCAGCGATATCGGACTTAAAGATGATAAGGGTGGGAAATATACT
1 GATTCAAGGCCAACGACACCGGACTT-AAGATGAGAAGAAT-GCCAATGTGCT
* * ** * * *
1772742 GATTCAAAGCCAGCGACAGTGGACTTAAAAATGAAAAGAGTGCCAATGTGCT
1 GATTCAAGGCCAACGACACCGGACTT-AAGATGAGAAGAATGCCAATGTGCT
*
1772794 GATTTAAGGCCAA
1 GATTCAAGGCCAA
1772807 TGGCATTAGA
Statistics
Matches: 212, Mismatches: 44, Indels: 25
0.75 0.16 0.09
Matches are distributed among these distances:
49 60 0.28
50 6 0.03
51 41 0.19
52 61 0.29
53 44 0.21
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (51 bp):
GATTCAAGGCCAACGACACCGGACTTAAGATGAGAAGAATGCCAATGTGCT
Found at i:1772931 original size:32 final size:31
Alignment explanation
Indices: 1772888--1773307 Score: 376
Period size: 32 Copynumber: 13.2 Consensus size: 31
1772878 TAGAAGGAGA
*
1772888 TGCCACCGACTTATGTGGGCTTTGAAAAGGTT
1 TGCCACCGACTTGTGTGGGCTTTGAAAAGG-T
* * *
1772920 TGCCACTGACTTGTGTGGGCTTTTAAGAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAA-AAGGT
* * * * *
1772952 TGCCATCGACTTATGTGGGCTTTCAAAAAAAGA
1 TGCCACCGACTTGTGTGGGCTTT--GAAAAGGT
* * * *
1772985 TGCTACCGAGTTATGTAGGCTTTGAAAAGGT
1 TGCCACCGACTTGTGTGGGCTTTGAAAAGGT
* *
1773016 TGCCACTGACTTGTGTGGGCTTTAAAAATGGT
1 TGCCACCGACTTGTGTGGGCTTTGAAAA-GGT
* *
1773048 TGCCACCGACTTGTATGGGCTTTAAAAATGGT
1 TGCCACCGACTTGTGTGGGCTTTGAAAA-GGT
* *
1773080 TGCCACCAACTTGTGTGGGCTTTAAAAAAGAGT
1 TGCCACCGACTTGTGTGGGCTTT-GAAAAG-GT
*
1773113 TGCCATCGACTTGTGTGGGCTTTAGAAAATGG-
1 TGCCACCGACTTGTGTGGGCTTT-GAAAA-GGT
*
1773145 TGCCACCGACTTGTGTGGGCTTTGAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAAAAGGT
* * *
1773176 TGCCACCGATTTATGTGGGCTTTTAAAAGGGT
1 TGCCACCGACTTGTGTGGGCTTTGAAAA-GGT
* ** * * * *
1773208 TGCTATTGATTTGTATAGGCTTTTGAAAAAGGA
1 TGCCACCGACTTGTGTGGGC-TTTG-AAAAGGT
* *
1773241 TGCCACTGAGTTGTGTGGGCTTTGAAAAGGT
1 TGCCACCGACTTGTGTGGGCTTTGAAAAGGT
* * * *
1773272 TGCCACCGAATTGTGTTGACTTT-AAAAGGG
1 TGCCACCGACTTGTGTGGGCTTTGAAAAGGT
1773302 TGCCAC
1 TGCCAC
1773308 GAAGTTGTAG
Statistics
Matches: 321, Mismatches: 56, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
30 14 0.04
31 80 0.25
32 142 0.44
33 78 0.24
34 7 0.02
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (31 bp):
TGCCACCGACTTGTGTGGGCTTTGAAAAGGT
Found at i:1773102 original size:128 final size:126
Alignment explanation
Indices: 1772888--1773307 Score: 466
Period size: 128 Copynumber: 3.3 Consensus size: 126
1772878 TAGAAGGAGA
* * * *
1772888 TGCCACCGACTTATGTGGGCTTTGAAAAGGTTTGCCACTGACTTGTGTGGGCTTTTAAGAGGGTT
1 TGCCACCGACTTGTGTGGGCTTTAAAAAGG-TTGCCACCGACTTGTGTGGGCTTTTAAAAGGGTT
* * * *
1772953 GCCATCGACTTATGTGGGCTTTCAAAAAAAGATGCTACCGAGTTATGTAGGCTTTGAAAAGGT
65 GCCATCGACTTGTGTGGGCTTT-AAAAAAAGATGCCACCGAGTTGTGTGGGCTTTGAAAAGGT
* * * *
1773016 TGCCACTGACTTGTGTGGGCTTTAAAAATGGTTGCCACCGACTTGTATGGGCTTTAAAAATGGTT
1 TGCCACCGACTTGTGTGGGCTTTAAAAA-GGTTGCCACCGACTTGTGTGGGCTTTTAAAAGGGTT
* * * * *
1773081 GCCACCAACTTGTGTGGGCTTTAAAAAAGAGTTGCCATCGACTTGTGTGGGCTTTAGAAAATGG-
65 GCCATCGACTTGTGTGGGCTTTAAAAAA-AGATGCCACCGAGTTGTGTGGGCTTT-GAAAA-GGT
* * * *
1773145 TGCCACCGACTTGTGTGGGCTTTGAAAGGGTTGCCACCGATTTATGTGGGCTTTTAAAAGGGTTG
1 TGCCACCGACTTGTGTGGGCTTTAAAAAGGTTGCCACCGACTTGTGTGGGCTTTTAAAAGGGTTG
* * * * * * * *
1773210 CTATTGATTTGTATAGGCTTTTGAAAAAGGATGCCACTGAGTTGTGTGGGCTTTGAAAAGGT
66 CCATCGACTTGTGTGGGC-TTTAAAAAAAGATGCCACCGAGTTGTGTGGGCTTTGAAAAGGT
* * * *
1773272 TGCCACCGAATTGTGTTGACTTT-AAAAGGGTGCCAC
1 TGCCACCGACTTGTGTGGGCTTTAAAAAGGTTGCCAC
1773308 GAAGTTGTAG
Statistics
Matches: 243, Mismatches: 43, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
126 13 0.05
127 31 0.13
128 157 0.65
129 40 0.16
130 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (126 bp):
TGCCACCGACTTGTGTGGGCTTTAAAAAGGTTGCCACCGACTTGTGTGGGCTTTTAAAAGGGTTG
CCATCGACTTGTGTGGGCTTTAAAAAAAGATGCCACCGAGTTGTGTGGGCTTTGAAAAGGT
Found at i:1773338 original size:30 final size:29
Alignment explanation
Indices: 1773233--1773922 Score: 281
Period size: 30 Copynumber: 23.2 Consensus size: 29
1773223 TAGGCTTTTG
*
1773233 AAAAAGGATGCCACTG-AGTTGTGTGGGCTTT
1 AAAAAGGATGCCAC-GAAG-T-TGTGGACTTT
* *
1773264 GAAAAGGTTGCCACCGAA-TTGTGTTGACTTT
1 AAAAAGGATGCCA-CGAAGTTGTG--GACTTT
* *
1773295 -AAAAGGGTGCCACGAAGTTGTAGACTTT
1 AAAAAGGATGCCACGAAGTTGTGGACTTT
*
1773323 GAAAAAGGATGCCACGAAGTTATGGACTTT
1 -AAAAAGGATGCCACGAAGTTGTGGACTTT
* * *
1773353 AAAAAAAAAGG-TACTACGGAGTTGTGGACTTT
1 ----AAAAAGGATGCCACGAAGTTGTGGACTTT
* *
1773385 GAAAAAAAGGGAAGGCCACGGAGTTGTGGACTTT
1 ---AAAAA-GG-ATGCCACGAAGTTGTGGACTTT
*
1773419 AAAAA-GATGCCACGAAGTTGTGGACTTAA
1 AAAAAGGATGCCACGAAGTTGTGGACTT-T
* ** *
1773448 AAAAAGGGTGCCATAAAGTTGTAGACTTT
1 AAAAAGGATGCCACGAAGTTGTGGACTTT
* * * * * *
1773477 AGAAAGGGTGCCATGGACTTATGGACTTT
1 AAAAAGGATGCCACGAAGTTGTGGACTTT
* * **
1773506 AAAAAGGGTGCCACAAAGTCATGGACTTT
1 AAAAAGGATGCCACGAAGTTGTGGACTTT
**
1773535 -AAAA-GAGTGCCACGAAGTCATGGAC-TT
1 AAAAAGGA-TGCCACGAAGTTGTGGACTTT
* * * *
1773562 AAAAAAGAGTGCCA-TAGAGTTATGGACTTAA
1 AAAAAGGA-TGCCACGA-AGTTGTGGACTT-T
* *
1773593 AAAAAGG-T-CCATGAAGTTATGGAC-TT
1 AAAAAGGATGCCACGAAGTTGTGGACTTT
** *
1773619 AAAAAAAAGTGCCACAAAGTTGTGGAC-TT
1 AAAAAGGA-TGCCACGAAGTTGTGGACTTT
* * * * *
1773648 GAAAAGGGTACCACGGAGCTGTGGA-TTT
1 AAAAAGGATGCCACGAAGTTGTGGACTTT
* *
1773676 AAAAAGAGGGATGCTACTG-AGTCGTGGACTTT
1 -AAAA-A-GGATGCCAC-GAAGTTGTGGACTTT
* * **
1773708 AAGAAGAGATGCCACTG-GGTCATGGACTTT
1 AAAAAG-GATGCCAC-GAAGTTGTGGACTTT
* * * **
1773738 GAGAAGAGATGCCACTG-GGTCATGGACTTT
1 AAAAAG-GATGCCAC-GAAGTTGTGGACTTT
* * **
1773768 GAGAAGAGATGCCACTG-AGTCATGGACTTT
1 AAAAAG-GATGCCAC-GAAGTTGTGGACTTT
* *
1773798 GAGAAAA-GATGCTACTG-AGTTGTAGACTTT
1 -A-AAAAGGATGCCAC-GAAGTTGTGGACTTT
* * *
1773828 AAAAAAGGTTGCCACTAAGTTGTGGACTTA
1 -AAAAAGGATGCCACGAAGTTGTGGACTTT
*
1773858 AAAAAGGGATGCCACTG-AGTCGTGGACTTT
1 AAAAA-GGATGCCAC-GAAGTTGTGGACTTT
* *
1773888 AAAGAAGGATACCACTG-AGTTGTGGACTTA
1 AAA-AAGGATGCCAC-GAAGTTGTGGACTTT
1773918 AAAAA
1 AAAAA
1773923 ATGGATGATA
Statistics
Matches: 531, Mismatches: 89, Indels: 80
0.76 0.13 0.11
Matches are distributed among these distances:
26 5 0.01
27 4 0.01
28 80 0.15
29 113 0.21
30 223 0.42
31 53 0.10
32 28 0.05
33 7 0.01
34 18 0.03
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.24
Consensus pattern (29 bp):
AAAAAGGATGCCACGAAGTTGTGGACTTT
Found at i:1773381 original size:32 final size:33
Alignment explanation
Indices: 1773324--1773423 Score: 121
Period size: 32 Copynumber: 3.0 Consensus size: 33
1773314 GTAGACTTTG
* * *
1773324 AAAAAGGATGCCACGAAGTTATGGACTTTAAAA
1 AAAAAGGAAGCCACGGAGTTGTGGACTTTAAAA
* * *
1773357 AAAAAGGTA-CTACGGAGTTGTGGACTTTGAAA
1 AAAAAGGAAGCCACGGAGTTGTGGACTTTAAAA
*
1773389 AAAAGGGAAGGCCACGGAGTTGTGGACTTTAAAA
1 AAAAAGGAA-GCCACGGAGTTGTGGACTTTAAAA
1773423 A
1 A
1773424 GATGCCACGA
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
32 26 0.47
33 7 0.13
34 22 0.40
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.21
Consensus pattern (33 bp):
AAAAAGGAAGCCACGGAGTTGTGGACTTTAAAA
Found at i:1773424 original size:62 final size:61
Alignment explanation
Indices: 1773289--1773686 Score: 198
Period size: 57 Copynumber: 6.8 Consensus size: 61
1773279 GAATTGTGTT
* * *
1773289 GACTTTAAAAGGGTGCCACGAAGTTGTAGACTTTG--AAAAA-GGATGCCACGAAGTTATG
1 GACTTTAAAAAGGTGCCACGAAGTTGTGGACTTTGAAAAAAAGGGAGGCCACGAAGTTATG
* * * * *
1773347 GACTTTAAAAAAAAAGGTACTACGGAGTTGTGGACTTTGAAAAAAAGGGAAGGCCACGGAGTTGT
1 GACTTT----AAAAAGGTGCCACGAAGTTGTGGACTTTGAAAAAAAGGG-AGGCCACGAAGTTAT
1773412 G
61 G
* * ** * *
1773413 GACTTTAAAAAGATGCCACGAAGTTGTGGAC-TT-AAAAAAAGGG-TGCCATAAAGTTGTA
1 GACTTTAAAAAGGTGCCACGAAGTTGTGGACTTTGAAAAAAAGGGAGGCCACGAAGTTATG
* * * * * * * *
1773471 GACTTTAGAAAGGGTGCCATGGACTTATGGACTTT---AAAAAGGG-TGCCACAAAGTCATG
1 GACTTTA-AAAAGGTGCCACGAAGTTGTGGACTTTGAAAAAAAGGGAGGCCACGAAGTTATG
** *
1773529 GACTTT-AAAAGAGTGCCACGAAGTCATGGAC-TT--AAAAAA--GAGTGCCA-TAGAGTTATG
1 GACTTTAAAAAG-GTGCCACGAAGTTGTGGACTTTGAAAAAAAGGGAG-GCCACGA-AGTTATG
* * * * *
1773586 GACTTAAAAAAAGGT-CCATGAAGTTATGGAC-TT-AAAAAAA---AGTGCCACAAAGTTGTG
1 GACTT-TAAAAAGGTGCCACGAAGTTGTGGACTTTGAAAAAAAGGGAG-GCCACGAAGTTATG
* * * * * *
1773643 GACTTGAAAAGGGTACCACGGAGCTGTGGA-TTT-AAAAAGAGGGA
1 GACTTTAAAAAGGTGCCACGAAGTTGTGGACTTTGAAAAAAAGGGA
1773687 TGCTACTGAG
Statistics
Matches: 269, Mismatches: 47, Indels: 46
0.74 0.13 0.13
Matches are distributed among these distances:
55 1 0.00
56 14 0.05
57 88 0.33
58 57 0.21
59 23 0.09
60 13 0.05
61 2 0.01
62 45 0.17
64 5 0.02
65 2 0.01
66 19 0.07
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.23
Consensus pattern (61 bp):
GACTTTAAAAAGGTGCCACGAAGTTGTGGACTTTGAAAAAAAGGGAGGCCACGAAGTTATG
Found at i:1773503 original size:29 final size:29
Alignment explanation
Indices: 1773289--1773656 Score: 217
Period size: 29 Copynumber: 12.5 Consensus size: 29
1773279 GAATTGTGTT
* * *
1773289 GACTTT-AAAAGGGTGCCACGAAGTTGTA
1 GACTTTAAAAAGGGTGCCATGAAGTTATG
* *
1773317 GACTTTGAAAAAGGATGCCACGAAGTTATG
1 GACTTT-AAAAAGGGTGCCATGAAGTTATG
* * * * * *
1773347 GACTTTAAAAAAAAAGGTACTACGGAGTTGTG
1 GACTTT---AAAAAGGGTGCCATGAAGTTATG
* * * *
1773379 GACTTTGAAAAAAAGGGAAGGCCACGGAGTTGTG
1 GACTTT---AAAAAGGG--TGCCATGAAGTTATG
* * *
1773413 GACTTTAAAAA-GATGCCACGAAGTTGTG
1 GACTTTAAAAAGGGTGCCATGAAGTTATG
* * * *
1773441 GACTTAAAAAAAGGGTGCCATAAAGTTGTA
1 GACTT-TAAAAAGGGTGCCATGAAGTTATG
* * *
1773471 GACTTTAGAAAGGGTGCCATGGACTTATG
1 GACTTTAAAAAGGGTGCCATGAAGTTATG
** *
1773500 GACTTTAAAAAGGGTGCCACAAAGTCATG
1 GACTTTAAAAAGGGTGCCATGAAGTTATG
* * *
1773529 GACTTT-AAAAGAGTGCCACGAAGTCATG
1 GACTTTAAAAAGGGTGCCATGAAGTTATG
* *
1773557 GACTTAAAAAAGAGTGCCAT-AGAGTTATG
1 GACTTTAAAAAGGGTGCCATGA-AGTTATG
* *
1773586 GACTTAAAAAAAGGT-CCATGAAGTTATG
1 GACTTTAAAAAGGGTGCCATGAAGTTATG
* ** ** *
1773614 GACTTAAAAAAAAGTGCCACAAAGTTGTG
1 GACTTTAAAAAGGGTGCCATGAAGTTATG
*
1773643 GAC-TTGAAAAGGGT
1 GACTTTAAAAAGGGT
1773657 ACCACGGAGC
Statistics
Matches: 277, Mismatches: 51, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
28 82 0.30
29 96 0.35
30 44 0.16
31 5 0.02
32 32 0.12
34 18 0.06
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (29 bp):
GACTTTAAAAAGGGTGCCATGAAGTTATG
Found at i:1773764 original size:60 final size:60
Alignment explanation
Indices: 1773685--1774057 Score: 245
Period size: 60 Copynumber: 6.2 Consensus size: 60
1773675 TAAAAAGAGG
* * *
1773685 GATGCTACTGAGTCGTGGACTTTAAGAAGAGATGCCACTGGGTCATGGACTTTGAGAAGA
1 GATGCTACTGAGTCATGGACTTTAAGAAGAGATGCCACTGAGTCATGGACTTTGAGAAAA
* * *
1773745 GATGCCACTGGGTCATGGACTTTGAGAAGAGATGCCACTGAGTCATGGACTTTGAGAAAA
1 GATGCTACTGAGTCATGGACTTTAAGAAGAGATGCCACTGAGTCATGGACTTTGAGAAAA
** * * * * ** *
1773805 GATGCTACTGAGTTGTAGACTTTAA-AAAAGGTTGCCACTAAGTTGTGGAC-TT-AAAAAA
1 GATGCTACTGAGTCATGGACTTTAAGAAGA-GATGCCACTGAGTCATGGACTTTGAGAAAA
* * * ** * *
1773863 GGGATGCCACTGAGTCGTGGACTTTAAAGAAG-GATACCACTGAGTTGTGGAC-TTAAAAAAA
1 --GATGCTACTGAGTCATGGACTTT-AAGAAGAGATGCCACTGAGTCATGGACTTTGAGAAAA
* * * * * * * * *
1773924 TGGATGATATTGAGTCATAGACTTTGAGATGAGATGCCACTAAGGCGTGGACTTTGA-AGAAG
1 --GATGCTACTGAGTCATGGACTTTAAGAAGAGATGCCACTGAGTCATGGACTTTGAGA-AAA
* * * ** * * * * * *
1773986 GATGCCATTGAGTCGTGGACTTGGAGAAGAAATGGCTCTGAGTCATAGACTTGGAGAAGA
1 GATGCTACTGAGTCATGGACTTTAAGAAGAGATGCCACTGAGTCATGGACTTTGAGAAAA
* *
1774046 GATACCACTGAG
1 GATGCTACTGAG
1774058 GCATTGTCGA
Statistics
Matches: 246, Mismatches: 57, Indels: 20
0.76 0.18 0.06
Matches are distributed among these distances:
58 5 0.02
59 5 0.02
60 184 0.75
61 45 0.18
62 7 0.03
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (60 bp):
GATGCTACTGAGTCATGGACTTTAAGAAGAGATGCCACTGAGTCATGGACTTTGAGAAAA
Found at i:1773788 original size:90 final size:91
Alignment explanation
Indices: 1773685--1774057 Score: 312
Period size: 90 Copynumber: 4.1 Consensus size: 91
1773675 TAAAAAGAGG
* * * * *
1773685 GATGCTACTGAGTCGTGGACTTT-AAGAAGAGATGCCACTGGGTCATGGACTTTGAGAAGA-GAT
1 GATGCCACTGAGTCGTGGACTTTAAAGAAG-GATGCCACTGAGTCGTGGACTTTGAAAAAAGGAT
* *
1773748 GCCACTGGGTCATGGACTTTGAGAAGA
65 GCCACTGAGTCATAGACTTTGAGAAGA
* * * * *
1773775 GATGCCACTGAGTCATGGACTTTGAGAA-AA-GATGCTACTGAGTTGTAGACTTT-AAAAAAGGT
1 GATGCCACTGAGTCGTGGACTTT-A-AAGAAGGATGCCACTGAGTCGTGGACTTTGAAAAAAGGA
* ** * ** * *
1773837 TGCCACTAAGTTGTGGACTTAAAAAAGG
64 TGCCACTGAGTCATAGACTTTGAGAAGA
* * *
1773865 GATGCCACTGAGTCGTGGACTTTAAAGAAGGATACCACTGAGTTGTGGAC-TTAAAAAAATGGAT
1 GATGCCACTGAGTCGTGGACTTTAAAGAAGGATGCCACTGAGTCGTGGACTTTGAAAAAA-GGAT
** * *
1773929 GATATTGAGTCATAGACTTTGAGATGA
65 GCCACTGAGTCATAGACTTTGAGAAGA
* * * * * *
1773956 GATGCCACTAAGGCGTGGACTTTGAAGAAGGATGCCATTGAGTCGTGGACTTGGAGAAGAA--AT
1 GATGCCACTGAGTCGTGGACTTTAAAGAAGGATGCCACTGAGTCGTGGACTTTGA-AAAAAGGAT
* * *
1774019 GGCTCTGAGTCATAGACTTGGAGAAGA
65 GCCACTGAGTCATAGACTTTGAGAAGA
*
1774046 GATACCACTGAG
1 GATGCCACTGAG
1774058 GCATTGTCGA
Statistics
Matches: 221, Mismatches: 52, Indels: 20
0.75 0.18 0.07
Matches are distributed among these distances:
88 2 0.01
89 9 0.04
90 138 0.62
91 62 0.28
92 4 0.02
93 6 0.03
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (91 bp):
GATGCCACTGAGTCGTGGACTTTAAAGAAGGATGCCACTGAGTCGTGGACTTTGAAAAAAGGATG
CCACTGAGTCATAGACTTTGAGAAGA
Found at i:1774057 original size:30 final size:30
Alignment explanation
Indices: 1773685--1774057 Score: 160
Period size: 30 Copynumber: 12.4 Consensus size: 30
1773675 TAAAAAGAGG
* * * **
1773685 GATGCTACTGAGTCGTGGACTTTAAGAAGA
1 GATGCCACTGAGTCATAGACTTGGAGAAGA
* * *
1773715 GATGCCACTGGGTCATGGACTTTGAGAAGA
1 GATGCCACTGAGTCATAGACTTGGAGAAGA
* * *
1773745 GATGCCACTGGGTCATGGACTTTGAGAAGA
1 GATGCCACTGAGTCATAGACTTGGAGAAGA
* * *
1773775 GATGCCACTGAGTCATGGACTTTGAGAAAA
1 GATGCCACTGAGTCATAGACTTGGAGAAGA
* ** * * *
1773805 GATGCTACTGAGTTGTAGACTT-TAAAAAA
1 GATGCCACTGAGTCATAGACTTGGAGAAGA
* * ** * ** * *
1773834 GGTTGCCACTAAGTTGTGGACTTAAAAAAGG
1 -GATGCCACTGAGTCATAGACTTGGAGAAGA
* * **
1773865 GATGCCACTGAGTCGTGGACTTTAAAGAAG-
1 GATGCCACTGAGTCATAGAC-TTGGAGAAGA
* ** * * * *
1773895 GATACCACTGAGTTGTGGACTT-AAAAAAA
1 GATGCCACTGAGTCATAGACTTGGAGAAGA
** * * *
1773924 TGGATGATATTGAGTCATAGACTTTGAGATGA
1 --GATGCCACTGAGTCATAGACTTGGAGAAGA
* * * * *
1773956 GATGCCACTAAGGCGTGGACTTTGAAGAAG-
1 GATGCCACTGAGTCATAGAC-TTGGAGAAGA
* * *
1773986 GATGCCATTGAGTCGTGGACTTGGAGAAGA
1 GATGCCACTGAGTCATAGACTTGGAGAAGA
* * *
1774016 AATGGCTCTGAGTCATAGACTTGGAGAAGA
1 GATGCCACTGAGTCATAGACTTGGAGAAGA
*
1774046 GATACCACTGAG
1 GATGCCACTGAG
1774058 GCATTGTCGA
Statistics
Matches: 272, Mismatches: 62, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
28 4 0.01
29 15 0.06
30 217 0.80
31 33 0.12
32 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (30 bp):
GATGCCACTGAGTCATAGACTTGGAGAAGA
Found at i:1782736 original size:19 final size:20
Alignment explanation
Indices: 1782700--1782749 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
1782690 ATTGTCTTGC
*
1782700 ATGTATCGATAAATTGAAGA
1 ATGTATCGATAAATTGAAAA
1782720 ATGTAT-GATATAA-TGAAAA
1 ATGTATCGATA-AATTGAAAA
1782739 ATGTATCGATA
1 ATGTATCGATA
1782750 CATTTTCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.46, C:0.04, G:0.18, T:0.32
Consensus pattern (20 bp):
ATGTATCGATAAATTGAAAA
Found at i:1782857 original size:21 final size:20
Alignment explanation
Indices: 1782809--1782863 Score: 92
Period size: 20 Copynumber: 2.7 Consensus size: 20
1782799 GCCTTTCATA
1782809 TATGTATCGATACATTCACC
1 TATGTATCGATACATTCACC
*
1782829 TATGTATCGATACATTCACT
1 TATGTATCGATACATTCACC
1782849 TATTGTATCGATACA
1 TA-TGTATCGATACA
1782864 ATTTGTTGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 21 0.64
21 12 0.36
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (20 bp):
TATGTATCGATACATTCACC
Found at i:1783400 original size:19 final size:20
Alignment explanation
Indices: 1783378--1783427 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
1783368 AATACATTGC
**
1783378 ATCGATACATGTTC-ATTAT
1 ATCGATACATGGACAATTAT
1783397 ATCGATACATGGACAATTAT
1 ATCGATACATGGACAATTAT
1783417 ATCGATACATG
1 ATCGATACATG
1783428 AAACTGGCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (20 bp):
ATCGATACATGGACAATTAT
Found at i:1783491 original size:13 final size:13
Alignment explanation
Indices: 1783473--1783502 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1783463 GATACATAGG
1783473 ACATTGTATCGAT
1 ACATTGTATCGAT
1783486 ACATTGTATCGAT
1 ACATTGTATCGAT
1783499 ACAT
1 ACAT
1783503 GATGAATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:1783498 original size:33 final size:33
Alignment explanation
Indices: 1783456--1783524 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1783446 CTACCAATGT
1783456 TTGTATCGATACAT-AGGACATTGTATCGATACA
1 TTGTATCGATACATGAGGA-ATTGTATCGATACA
* *
1783489 TTGTATCGATACATGATGAATTGTATCGATATA
1 TTGTATCGATACATGAGGAATTGTATCGATACA
1783522 TTG
1 TTG
1783525 CTTATAACAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 30 0.91
34 3 0.09
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGAGGAATTGTATCGATACA
Found at i:1789368 original size:13 final size:13
Alignment explanation
Indices: 1789350--1789388 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
1789340 AAAACCCAGA
*
1789350 TGTATCAATATAT
1 TGTATCAATACAT
*
1789363 TGTATCGATACAT
1 TGTATCAATACAT
*
1789376 TGTATCGATACAT
1 TGTATCAATACAT
1789389 GGGTTACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (13 bp):
TGTATCAATACAT
Found at i:1791291 original size:22 final size:22
Alignment explanation
Indices: 1791266--1791307 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1791256 TTTTTTAAGA
1791266 TTTGACAAAGGGGGAGAAATGC
1 TTTGACAAAGGGGGAGAAATGC
*
1791288 TTTGATAAAGGGGGAGAAAT
1 TTTGACAAAGGGGGAGAAAT
1791308 ATATTTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.36, T:0.21
Consensus pattern (22 bp):
TTTGACAAAGGGGGAGAAATGC
Found at i:1791917 original size:13 final size:13
Alignment explanation
Indices: 1791899--1791925 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1791889 ACATTATGCT
1791899 TTGTATCGATACA
1 TTGTATCGATACA
1791912 TTGTATCGATACA
1 TTGTATCGATACA
1791925 T
1 T
1791926 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1792031 original size:13 final size:13
Alignment explanation
Indices: 1791991--1792040 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 13
1791981 GATACATAGG
1791991 ACATTGTATCGAT
1 ACATTGTATCGAT
1792004 ACA-TG-AT-G--
1 ACATTGTATCGAT
1792012 A-ATTGTATCGAT
1 ACATTGTATCGAT
1792024 ACATTGTATCGAT
1 ACATTGTATCGAT
1792037 ACAT
1 ACAT
1792041 GATGAATTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
7 1 0.03
8 3 0.10
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.10
13 18 0.58
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:1792033 original size:33 final size:33
Alignment explanation
Indices: 1791991--1792062 Score: 135
Period size: 33 Copynumber: 2.2 Consensus size: 33
1791981 GATACATAGG
1791991 ACATTGTATCGATACATGATGAATTGTATCGAT
1 ACATTGTATCGATACATGATGAATTGTATCGAT
*
1792024 ACATTGTATCGATACATGATGAATTGTATTGAT
1 ACATTGTATCGATACATGATGAATTGTATCGAT
1792057 ACATTG
1 ACATTG
1792063 CTTATAACGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (33 bp):
ACATTGTATCGATACATGATGAATTGTATCGAT
Found at i:1792051 original size:20 final size:19
Alignment explanation
Indices: 1791977--1792060 Score: 81
Period size: 20 Copynumber: 4.6 Consensus size: 19
1791967 CCACTGTTTA
*
1791977 TATCGATACATAGGACATTG
1 TATCGATACATATGA-ATTG
1791997 TATCGATACATGATGAATTG
1 TATCGATACAT-ATGAATTG
1792017 TATCGATAC------ATTG
1 TATCGATACATATGAATTG
1792030 TATCGATACATGATGAATTG
1 TATCGATACAT-ATGAATTG
*
1792050 TATTGATACAT
1 TATCGATACAT
1792061 TGCTTATAAC
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
13 13 0.24
20 38 0.70
21 3 0.06
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
TATCGATACATATGAATTG
Found at i:1795659 original size:167 final size:165
Alignment explanation
Indices: 1795471--1795797 Score: 374
Period size: 165 Copynumber: 2.0 Consensus size: 165
1795461 ACTCCCTTCG
* *
1795471 TTTTCGAAATACAGAGTTTTCTTCTCCGTAATTTTTTTTCGAGGGGATTTCTCTCT-GTTTATAA
1 TTTTCGAAATACAGAGTTTTCTACTCCGTAATTATTTTT--AGGGGATTTCTCT-TGGTTTATAA
** * * * * *
1795535 ATTTTAAAATTTATCAAATAT-TATTATTTAACCCAAATTCAATCAGTTTTAAAAAATTACTTTT
63 ATTTTAAAATGCATAAAATATCCA-CATTTAACCCAAATTAAATCAGTTTTAAAAAATT-CTTTG
* * *
1795599 A-TTTCATTAATTTTTCTTTTTTTCCTTTAAATTTTTCTA
126 ATTTTCATGAATTTTTCATTTTTTCCTTAAAATTTTTCTA
* * * *
1795638 TTTTTGAAATAC-GAAGTTTTCTACTCCGTAATTATTTTTAGGGTATTTTTCTTGGTTTATAATT
1 TTTTCGAAATACAG-AGTTTTCTACTCCGTAATTATTTTTAGGGGATTTCTCTTGGTTTATAAAT
** * * *
1795702 TTTAAAATGCATAAAATATCCACATTTAATTCATATTAAATTAGTTTTGAAAAATTCTTTGATTT
65 TTTAAAATGCATAAAATATCCACATTTAACCCAAATTAAATCAGTTTTAAAAAATTCTTTGATTT
*
1795767 TCATGAGTTTTTCATTTTTTCCTTAAAATTT
130 TCATGAATTTTTCATTTTTTCCTTAAAATTT
1795798 CCTTATTCTC
Statistics
Matches: 134, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
164 6 0.04
165 92 0.69
166 2 0.01
167 34 0.25
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (165 bp):
TTTTCGAAATACAGAGTTTTCTACTCCGTAATTATTTTTAGGGGATTTCTCTTGGTTTATAAATT
TTAAAATGCATAAAATATCCACATTTAACCCAAATTAAATCAGTTTTAAAAAATTCTTTGATTTT
CATGAATTTTTCATTTTTTCCTTAAAATTTTTCTA
Found at i:1795787 original size:165 final size:165
Alignment explanation
Indices: 1795527--1796059 Score: 497
Period size: 165 Copynumber: 3.2 Consensus size: 165
1795517 ATTTCTCTCT
* * * ** * * *
1795527 GTTTATAAA-TTTTAAAATTTATCAAATATTATTATTTAACCCAAATTCAATCAGTTTTAAAAAA
1 GTTTA-AAATTTTTAAAATTCATCAAATATCATCATTTAATTCATATTAAATCAGTTTTGAAAAA
* * * * * *
1795591 TTACTTTTA-TTTCATTAATTTTTCTTTTTTTCCTTTAAATTTT-TCTATTTTTGAAATACGAAG
65 TT-CTTTTATTTTCATGAGTTTTTCATTTTTTCCTTTAAATTTTCT-TATTTTCGAAAAACCAAG
* *
1795654 TTTTCTACTCCGTAATTATTTTTAGGGTATTTTTCTTG
128 TTTTCTACTCCATAAATATTTTTAGGGTATTTTTCTTG
* * * *
1795692 GTTTATAATTTTTAAAATGCATAAAATATCCA-CATTTAATTCATATTAAATTAGTTTTGAAAAA
1 GTTTAAAATTTTTAAAATTCATCAAATAT-CATCATTTAATTCATATTAAATCAGTTTTGAAAAA
* * * * *
1795756 TTCTTTGATTTTCATGAGTTTTTCATTTTTTCCTTAAAATTTCCTTATTCTCGAAAAATCAAGTT
65 TTCTTTTATTTTCATGAGTTTTTCATTTTTTCCTTTAAATTTTCTTATTTTCGAAAAACCAAGTT
* * * ** * *
1795821 TTCTAGTCTATAAATGTTTACAGGGGAATTTTT-TTCA
130 TTCTACTCCATAAATATTTTTA-GGGTATTTTTCTT-G
* * *
1795858 TTTTAAAATTTTT-AAATTCATCAAATATCATCATTTAATTCATAGTAAATCAGTTTTG-AAATT
1 GTTTAAAATTTTTAAAATTCATCAAATATCATCATTTAATTCATATTAAATCAGTTTTGAAAAAT
* * * * * * *
1795921 TTTATTTATTTTCATGAGTTTTTTATTCTTTTCCTTGAAATTCTCTTGTTTTTGAAAAACCGAGT
66 TCT-TTTATTTTCATGAGTTTTTCATT-TTTTCCTTTAAATTTTCTTATTTTCGAAAAACCAAGT
* * *
1795986 TTTCTATTTCATAAATA-TTTTCGGGTGGATTTTTCTTG
129 TTTCTACTCCATAAATATTTTTAGGGT--ATTTTTCTTG
* *
1796024 GTTTAAAATTTTTAAAATTCATCTAATATTATCATT
1 GTTTAAAATTTTTAAAATTCATCAAATATCATCATT
1796060 AGACTCCCAT
Statistics
Matches: 293, Mismatches: 62, Indels: 24
0.77 0.16 0.06
Matches are distributed among these distances:
164 18 0.06
165 171 0.58
166 82 0.28
167 22 0.08
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (165 bp):
GTTTAAAATTTTTAAAATTCATCAAATATCATCATTTAATTCATATTAAATCAGTTTTGAAAAAT
TCTTTTATTTTCATGAGTTTTTCATTTTTTCCTTTAAATTTTCTTATTTTCGAAAAACCAAGTTT
TCTACTCCATAAATATTTTTAGGGTATTTTTCTTG
Found at i:1797716 original size:138 final size:139
Alignment explanation
Indices: 1797516--1797809 Score: 378
Period size: 138 Copynumber: 2.1 Consensus size: 139
1797506 CATAAGTATT
* * * *
1797516 CGTAAGGGTATGAAAATTTTAAAACTTTTCGTATCTTTTCGACTCTCCATTAAGGTACGAAATGA
1 CGTAAGGGTATAAAAATTTTAAAACTTTTCATATATTTTCGACTCTCCATTAAGGTACGAAATAA
* ** *
1797581 TTTTTTGAGAATT-AAAAATTAAATAAAAATTATTATC-TTATTTTTCAAGATTTTTAATATACA
66 TTTTTGGA-AATTAAAAAATTAAATAAAAATTATTATCAAAAATTTTCAAGATTTTTAATATACA
1797644 TATAG-TTTC
130 TATAGTTTTC
* ** * * * *
1797653 CGTAAGGGTATAAAAATTTTCATAACTTTTCATATATTTTCGGTTTTTCATTACGGTATGAAATA
1 CGTAAGGGTATAAAAATTTT-AAAACTTTTCATATATTTTCGACTCTCCATTAAGGTACGAAATA
* *
1797718 ATTTTTGGAAATTAAAAAATTAAATAAAAATTATTATCAAAAATTTTCAAGATTTTTAATATTCT
65 ATTTTTGGAAATTAAAAAATTAAATAAAAATTATTATCAAAAATTTTCAAGATTTTTAATATACA
*
1797783 TATGGTTTTC
130 TATAGTTTTC
*
1797793 CGTAAGGGTATAGAAAT
1 CGTAAGGGTATAAAAAT
1797810 CATCAAAACA
Statistics
Matches: 134, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
137 23 0.17
138 66 0.49
139 25 0.19
140 20 0.15
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (139 bp):
CGTAAGGGTATAAAAATTTTAAAACTTTTCATATATTTTCGACTCTCCATTAAGGTACGAAATAA
TTTTTGGAAATTAAAAAATTAAATAAAAATTATTATCAAAAATTTTCAAGATTTTTAATATACAT
ATAGTTTTC
Found at i:1804982 original size:21 final size:21
Alignment explanation
Indices: 1804957--1805015 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
1804947 TGGACATGTT
1804957 AAAATGCATTGAACATGGCTC
1 AAAATGCATTGAACATGGCTC
*
1804978 AAAATGCATGGAACATGGCTC
1 AAAATGCATTGAACATGGCTC
*
1804999 CAAATGCA-TGAACATGG
1 AAAATGCATTGAACATGG
1805016 GCTGTTTAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 8 0.23
21 27 0.77
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (21 bp):
AAAATGCATTGAACATGGCTC
Found at i:1806077 original size:20 final size:20
Alignment explanation
Indices: 1806054--1806107 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
1806044 CATTTCAGGC
*
1806054 ATGTATCGATACA-TTCACTT
1 ATGTATCGATACACTAC-CTT
*
1806074 ATGTATCGATATACTACCTT
1 ATGTATCGATACACTACCTT
1806094 ATTGTATCGATACA
1 A-TGTATCGATACA
1806108 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACACTACCTT
Found at i:1807524 original size:13 final size:13
Alignment explanation
Indices: 1807503--1807589 Score: 52
Period size: 13 Copynumber: 6.5 Consensus size: 13
1807493 TACTTTGTGA
*
1807503 AAAAAAAAAGAAG
1 AAAAGAAAAGAAG
**
1807516 AAAAGAAAAGGTG
1 AAAAGAAAAGAAG
* *
1807529 AGAATGAAATGAGAG
1 A-AAAGAAAAGA-AG
*
1807544 AAAA-AAAATAAAG
1 AAAAGAAAA-GAAG
1807557 AAAAGCAAAAGAA-
1 AAAAG-AAAAGAAG
*
1807570 AAAAGAAAATCAAG
1 AAAAGAAAA-GAAG
1807584 AAAAGA
1 AAAAGA
1807590 TGAAAAAAAT
Statistics
Matches: 55, Mismatches: 12, Indels: 13
0.69 0.15 0.16
Matches are distributed among these distances:
12 4 0.07
13 27 0.49
14 18 0.33
15 6 0.11
ACGTcount: A:0.72, C:0.02, G:0.20, T:0.06
Consensus pattern (13 bp):
AAAAGAAAAGAAG
Found at i:1808864 original size:35 final size:35
Alignment explanation
Indices: 1808826--1809154 Score: 300
Period size: 35 Copynumber: 9.3 Consensus size: 35
1808816 TCGCTCTTCA
* * * *
1808826 TCAAGCTTTTTTCATCGTCGTTTGACTGTATCTGA
1 TCAAACTTTTTCCATCATCGTTTGACTGTATCTGG
* * *
1808861 TCAAACTTTTTCCATCATCATTTGACTATATTTGG
1 TCAAACTTTTTCCATCATCGTTTGACTGTATCTGG
* * *
1808896 TCAAACTCTTTCCATTATCGTTTAACTGTATCTGG
1 TCAAACTTTTTCCATCATCGTTTGACTGTATCTGG
* * * *
1808931 TCAAACTCTTTCCATCATCATTTAATTGTATCTGG
1 TCAAACTTTTTCCATCATCGTTTGACTGTATCTGG
* * * *
1808966 TCAAACTCTCTCCATCATCATTTGACTATATCTGG
1 TCAAACTTTTTCCATCATCGTTTGACTGTATCTGG
* * * * *
1809001 TCAAACTTTTTTCGTTATTGTTTAACTGTATCTGG
1 TCAAACTTTTTCCATCATCGTTTGACTGTATCTGG
* * * **
1809036 TCAAACTTTTT-TAGTCATTGTTTGACTATATCCAG
1 TCAAACTTTTTCCA-TCATCGTTTGACTGTATCTGG
* * * * *
1809071 TTAAACTTTCTCCATCATCATTTGACTATATCTGA
1 TCAAACTTTTTCCATCATCGTTTGACTGTATCTGG
* * *
1809106 TTAAACTTTTTTCATCATCGTTTGATTGTATCCTGG
1 TCAAACTTTTTCCATCATCGTTTGACTGTAT-CTGG
1809142 TCAAACTCTTTTC
1 TCAAACT-TTTTC
1809155 ATCCTCATTC
Statistics
Matches: 238, Mismatches: 52, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
35 224 0.94
36 10 0.04
37 4 0.02
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.45
Consensus pattern (35 bp):
TCAAACTTTTTCCATCATCGTTTGACTGTATCTGG
Found at i:1809034 original size:105 final size:105
Alignment explanation
Indices: 1808834--1809163 Score: 392
Period size: 105 Copynumber: 3.1 Consensus size: 105
1808824 CATCAAGCTT
* * * * * *
1808834 TTTTCATCGTCGTTTGACTGTATCTGATCAAACTTTTTCCATCATCATTTGACTATATTTGGTCA
1 TTTTCATCATCATTTAACTGTATCTGGTCAAACTTTCTCCATCATCATTTGACTATATCTGGTCA
* *
1808899 AACTCTTTCCATTATCGTTTAACTGTATCTGGTCAAACTC
66 AACTTTTTTCATTATCGTTTAACTGTATCTGGTCAAACTC
* * *
1808939 TTTCCATCATCATTTAATTGTATCTGGTCAAACTCTCTCCATCATCATTTGACTATATCTGGTCA
1 TTTTCATCATCATTTAACTGTATCTGGTCAAACTTTCTCCATCATCATTTGACTATATCTGGTCA
* *
1809004 AACTTTTTTCGTTATTGTTTAACTGTATCTGGTCAAACT-
66 AACTTTTTTCATTATCGTTTAACTGTATCTGGTCAAACTC
* ** * * ** * * *
1809043 TTTTTAGTCATTGTTTGACTATATCCAGTTAAACTTTCTCCATCATCATTTGACTATATCTGATT
1 TTTTCA-TCATCATTTAACTGTATCTGGTCAAACTTTCTCCATCATCATTTGACTATATCTGGTC
* * *
1809108 AAACTTTTTTCATCATCGTTTGATTGTATCCTGGTCAAACTC
65 AAACTTTTTTCATTATCGTTTAACTGTAT-CTGGTCAAACTC
*
1809150 TTTTCATCCTCATT
1 TTTTCATCATCATT
1809164 CGATGTGATG
Statistics
Matches: 187, Mismatches: 35, Indels: 5
0.82 0.15 0.02
Matches are distributed among these distances:
104 4 0.02
105 162 0.87
106 16 0.09
107 5 0.03
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.45
Consensus pattern (105 bp):
TTTTCATCATCATTTAACTGTATCTGGTCAAACTTTCTCCATCATCATTTGACTATATCTGGTCA
AACTTTTTTCATTATCGTTTAACTGTATCTGGTCAAACTC
Found at i:1813730 original size:16 final size:16
Alignment explanation
Indices: 1813711--1813745 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1813701 TTTTTAAATT
*
1813711 ATTTTGTAGACACCTA
1 ATTTTGCAGACACCTA
*
1813727 ATTTTGCAGACATCTA
1 ATTTTGCAGACACCTA
1813743 ATT
1 ATT
1813746 GATATAACTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.40
Consensus pattern (16 bp):
ATTTTGCAGACACCTA
Found at i:1814789 original size:10 final size:10
Alignment explanation
Indices: 1814756--1814811 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
1814746 AACAACCACT
1814756 AAAAAAAGCAA
1 AAAAAAAG-AA
* * *
1814767 GATAAAAGGA
1 AAAAAAAGAA
1814777 AAAAAAAGAA
1 AAAAAAAGAA
1814787 AAAAAAA-AA
1 AAAAAAAGAA
*
1814796 AGAAAAAGAA
1 AAAAAAAGAA
1814806 AGAAAA
1 A-AAAA
1814812 CTAGTAAAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
9 8 0.23
10 18 0.51
11 9 0.26
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:1814792 original size:13 final size:13
Alignment explanation
Indices: 1814776--1814802 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1814766 AGATAAAAGG
1814776 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
1814789 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
1814802 A
1 A
1814803 GAAAGAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAA
Found at i:1817726 original size:42 final size:42
Alignment explanation
Indices: 1817663--1817751 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
1817653 TTGTCATGAT
*
1817663 ATCCTTGTCTTCTTATAACAAGAGTTTGGATGTTACCAAATA
1 ATCCTCGTCTTCTTATAACAAGAGTTTGGATGTTACCAAATA
*
1817705 ATCCTCGTCTTCTTATGACAAGAGTTTGGATGTTACCAAATA
1 ATCCTCGTCTTCTTATAACAAGAGTTTGGATGTTACCAAATA
1817747 ATCCT
1 ATCCT
1817752 TCTTGGTGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (42 bp):
ATCCTCGTCTTCTTATAACAAGAGTTTGGATGTTACCAAATA
Found at i:1818080 original size:25 final size:25
Alignment explanation
Indices: 1818041--1818116 Score: 77
Period size: 25 Copynumber: 3.0 Consensus size: 25
1818031 CTTGGGCCGC
*
1818041 ATTTTTAATTTTTATAAATATAAAAT
1 ATTTTTAA-TATTATAAATATAAAAT
1818067 ATTTTTAATATTATTATAATAT--AAT
1 ATTTTTAATATTA-TA-AATATAAAAT
**
1818092 ATAATTAATA-TATAAATATAAAAT
1 ATTTTTAATATTATAAATATAAAAT
1818116 A
1 A
1818117 AAGATATGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
22 5 0.12
23 2 0.05
24 6 0.14
25 15 0.35
26 10 0.23
27 5 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTTTTAATATTATAAATATAAAAT
Found at i:1818856 original size:19 final size:18
Alignment explanation
Indices: 1818813--1818858 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
1818803 TATTATTTTT
*
1818813 AATTTTGATATAAAAAATA
1 AATTTT-ATAAAAAAAATA
*
1818832 AGTTTTATAAAAAAAATCA
1 AATTTTATAAAAAAAAT-A
1818851 AATTTTAT
1 AATTTTAT
1818859 CATTTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.39
Consensus pattern (18 bp):
AATTTTATAAAAAAAATA
Found at i:1821076 original size:22 final size:22
Alignment explanation
Indices: 1821050--1821094 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1821040 AACGAAAGAC
1821050 TTTATATGAAAGAAT-AAATTAT
1 TTTATATGAAA-AATGAAATTAT
* *
1821072 TTTATTTTAAAAATGAAATTAT
1 TTTATATGAAAAATGAAATTAT
1821094 T
1 T
1821095 ATTTTTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (22 bp):
TTTATATGAAAAATGAAATTAT
Found at i:1824948 original size:3 final size:3
Alignment explanation
Indices: 1824940--1824968 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1824930 GAATTAAGGA
1824940 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1824969 ACTAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:1825021 original size:2 final size:2
Alignment explanation
Indices: 1825014--1825043 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1825004 AGGGTAGTGC
1825014 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1825044 TGTAAGAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1831068 original size:13 final size:14
Alignment explanation
Indices: 1831050--1831078 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1831040 ATATTTTAAA
1831050 TTTTAA-ATTGTAT
1 TTTTAACATTGTAT
1831063 TTTTAACATTGTAT
1 TTTTAACATTGTAT
1831077 TT
1 TT
1831079 AAATGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (14 bp):
TTTTAACATTGTAT
Found at i:1831278 original size:2 final size:2
Alignment explanation
Indices: 1831271--1831319 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
1831261 GTCCCAGTGA
1831271 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1831312 AT AT AT AT
1 AT AT AT AT
1831320 GGTTGTGAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1831668 original size:17 final size:17
Alignment explanation
Indices: 1831633--1831672 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1831623 CTTTAAATAT
* *
1831633 AATAAAATTTAATAGAA
1 AATAAAATTTAAAAAAA
1831650 AATAAAATTTAAAAAAA
1 AATAAAATTTAAAAAAA
1831667 AA-AAAA
1 AATAAAA
1831673 GAAAAATCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
AATAAAATTTAAAAAAA
Found at i:1832895 original size:30 final size:30
Alignment explanation
Indices: 1832839--1832897 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
1832829 TAATTTCTTA
**
1832839 AAATTATATTTTTAAATTTCTATTATTAAT
1 AAATTATATTTTTAAATTAATATTATTAAT
*
1832869 AAATTATGTTATTTAAATTAAT-TTATTAA
1 AAATTATATT-TTTAAATTAATATTATTAA
1832898 ATAATTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (30 bp):
AAATTATATTTTTAAATTAATATTATTAAT
Found at i:1833267 original size:17 final size:17
Alignment explanation
Indices: 1833245--1833277 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1833235 TTATATCTTA
1833245 ATTTTAT-CTTATTTTGT
1 ATTTTATGC-TATTTTGT
1833262 ATTTTATGCTATTTTG
1 ATTTTATGCTATTTTG
1833278 CATTCCTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.18, C:0.06, G:0.09, T:0.67
Consensus pattern (17 bp):
ATTTTATGCTATTTTGT
Found at i:1833435 original size:19 final size:20
Alignment explanation
Indices: 1833411--1833450 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1833401 GTTGAACTGT
1833411 AATAATA-ATTTTTAATTAA
1 AATAATATATTTTTAATTAA
*
1833430 AATAATATATTTTTATTTAA
1 AATAATATATTTTTAATTAA
1833450 A
1 A
1833451 TTTAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATAATATATTTTTAATTAA
Found at i:1834072 original size:13 final size:13
Alignment explanation
Indices: 1834054--1834080 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1834044 TTTATCACTT
1834054 TAGTAATAATTAG
1 TAGTAATAATTAG
1834067 TAGTAATAATTAG
1 TAGTAATAATTAG
1834080 T
1 T
1834081 GTGCAATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (13 bp):
TAGTAATAATTAG
Found at i:1836841 original size:36 final size:36
Alignment explanation
Indices: 1836794--1836864 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
1836784 CTAACTAGGA
1836794 TAAAACATTCTAATCTTACAAACCATCCCATTGTGT
1 TAAAACATTCTAATCTTACAAACCATCCCATTGTGT
* *
1836830 TAAAAGATTCTAATCTTACAAACTATCCCATTGTG
1 TAAAACATTCTAATCTTACAAACCATCCCATTGTG
1836865 AGTGACCTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.34
Consensus pattern (36 bp):
TAAAACATTCTAATCTTACAAACCATCCCATTGTGT
Found at i:1839879 original size:2 final size:2
Alignment explanation
Indices: 1839867--1839904 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1839857 ATGTTTCTTA
*
1839867 CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1839905 TTATATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:1841011 original size:61 final size:60
Alignment explanation
Indices: 1840931--1841051 Score: 215
Period size: 61 Copynumber: 2.0 Consensus size: 60
1840921 TTCATTCAAG
* *
1840931 AAACCAAATCTTCCTTAAGCTTCAAAGCATTAAAGAAAAGATTGCATAAGAATATTTTGCT
1 AAACCAAATCTTCCCTAAGCTTCAAAGCACTAAA-AAAAGATTGCATAAGAATATTTTGCT
1840992 AAACCAAATCTTCCCTAAGCTTCAAAGCACTAAAAAAAGATTGCATAAGAATATTTTGCT
1 AAACCAAATCTTCCCTAAGCTTCAAAGCACTAAAAAAAGATTGCATAAGAATATTTTGCT
1841052 TTTATCCTCT
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
60 26 0.45
61 32 0.55
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.28
Consensus pattern (60 bp):
AAACCAAATCTTCCCTAAGCTTCAAAGCACTAAAAAAAGATTGCATAAGAATATTTTGCT
Found at i:1844785 original size:22 final size:21
Alignment explanation
Indices: 1844753--1844793 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
1844743 TCTACTAGAT
*
1844753 TATTTTTTCAAAATTTTCAAA
1 TATTTTTTCAAAAATTTCAAA
1844774 TATTTTTCTCAAAAATTTCA
1 TATTTTT-TCAAAAATTTCA
1844794 TGACATTCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTTTTTCAAAAATTTCAAA
Found at i:1854992 original size:13 final size:13
Alignment explanation
Indices: 1854974--1854998 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1854964 AAGATCAGTG
1854974 TATCGATACAATA
1 TATCGATACAATA
1854987 TATCGATACAAT
1 TATCGATACAAT
1854999 GAGTAATGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TATCGATACAATA
Found at i:1854996 original size:33 final size:33
Alignment explanation
Indices: 1854954--1855016 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
1854944 TGCCTGCATG
*
1854954 TATCGATACAAAGA-TCAGTGTATCGATACAATA
1 TATCGATACAAAGAGT-AATGTATCGATACAATA
*
1854987 TATCGATACAATGAGTAATGTATCGATACA
1 TATCGATACAAAGAGTAATGTATCGATACA
1855017 TTTCCTTGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (33 bp):
TATCGATACAAAGAGTAATGTATCGATACAATA
Found at i:1855061 original size:19 final size:19
Alignment explanation
Indices: 1855037--1855089 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
1855027 AGTAGCTTCA
1855037 TATGTATCGATACAACACT
1 TATGTATCGATACAACACT
* *
1855056 TATGTATAGATACAACATT
1 TATGTATCGATACAACACT
1855075 TATGTATCGATACAA
1 TATGTATCGATACAA
1855090 ATCGTTGACA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (19 bp):
TATGTATCGATACAACACT
Found at i:1862451 original size:14 final size:14
Alignment explanation
Indices: 1862418--1862463 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
1862408 AATAATGTTT
*
1862418 TAAATAAAAATATA
1 TAAATACAAATATA
1862432 TAAATACAAATA-A
1 TAAATACAAATATA
*
1862445 TATAATAC-CATATA
1 TA-AATACAAATATA
1862459 TAAAT
1 TAAAT
1862464 CAATACATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 9 0.32
14 19 0.68
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAATACAAATATA
Found at i:1863320 original size:24 final size:26
Alignment explanation
Indices: 1863270--1863333 Score: 80
Period size: 24 Copynumber: 2.5 Consensus size: 26
1863260 AAATACTAAA
1863270 AATATAATATAAATACACGAATATATT
1 AATATAATATAAATACAC-AATATATT
1863297 AATATATATATAAA-ACA-AAT-TATT
1 AATATA-ATATAAATACACAATATATT
1863321 AATATACATATAA
1 AATATA-ATATAA
1863334 TCTTTTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
24 16 0.46
25 3 0.09
27 9 0.26
28 7 0.20
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (26 bp):
AATATAATATAAATACACAATATATT
Done.