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 1 of 13
Found at i:1693 original size:20 final size:19
Alignment explanation
Indices: 1668--1739 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 19
1658 AAAATGCCTG
* *
1668 AATGTATCGATATATTGTAA
1 AATGTATCGATACAATG-AA
*
1688 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
1708 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
1728 AATGTATCGATA
1 AATGTATCGATA
1740 ACATCTAGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 44 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.31
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:1805 original size:13 final size:13
Alignment explanation
Indices: 1758--1787 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1748 GTAAAGCCAG
1758 AATGTATCAATAC
1 AATGTATCAATAC
1771 AATGTATCAATAC
1 AATGTATCAATAC
1784 AATG
1 AATG
1788 AACAATGTAT
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:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (13 bp):
AATGTATCAATAC
Found at i:2417 original size:41 final size:40
Alignment explanation
Indices: 2372--2470 Score: 117
Period size: 41 Copynumber: 2.4 Consensus size: 40
2362 CATTTGTTTG
*
2372 GAGGACAAAGGAAAAAAGAATGAAATAGGGTCTTGCTCCTT
1 GAGGACAAAGGAAAAAAGAAAGAAA-AGGGTCTTGCTCCTT
* * * * *
2413 GAGGACAAAGGAGAGAAAGAAAGGAAAGTGTTTTGCTTCTT
1 GAGGACAAAGGA-AAAAAGAAAGAAAAGGGTCTTGCTCCTT
2454 GAGGACAAAGTGAAAAA
1 GAGGACAAAG-GAAAAA
2471 GAGTACGTCC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
41 37 0.76
42 12 0.24
ACGTcount: A:0.43, C:0.09, G:0.29, T:0.18
Consensus pattern (40 bp):
GAGGACAAAGGAAAAAAGAAAGAAAAGGGTCTTGCTCCTT
Found at i:2873 original size:60 final size:61
Alignment explanation
Indices: 2648--3034 Score: 548
Period size: 61 Copynumber: 6.3 Consensus size: 61
2638 GGAAAAGACA
* * *
2648 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAATG-AAAAGGCG
1 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTG
* * *
2709 TCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTG
1 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTG
*
2771 TCCTGCTCTTTGAGGACTAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTG
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTG
** *
2832 TCCTGCTC-TTGAGGACTAAAGGTGCCACCAACTTATGTGGGCTTTAAAAAG-AAAAGGTG
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTG
* *
2891 TCCTGCTCCTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTG
* ** *
2952 TCTTATTCTTTGAGGACTAAAGTGTGCCACCAACATCGTGTGGGC-TTGAAAAAAAAAAGGTG
1 TCCTGCTCTTTGAGGACTAAAG-GTGCCACCAAC-TCGTGTGGGCTTTGAAAAGAAAAAGGTG
* *
3014 TCCTGCTCTTTAAGGGCTAAA
1 TCCTGCTCTTTGAGGACTAAA
3035 AGGAAAAAGA
Statistics
Matches: 291, Mismatches: 30, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
59 16 0.05
60 79 0.27
61 120 0.41
62 66 0.23
63 10 0.03
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGTG
Found at i:2873 original size:182 final size:183
Alignment explanation
Indices: 2648--3023 Score: 560
Period size: 182 Copynumber: 2.1 Consensus size: 183
2638 GGAAAAGACA
* * *
2648 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAATGAAAAGGCGTCCT
1 TCCTGCTC-TTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAGGCGTCCT
* * * * *
2713 ACTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGGTGTCCTGCT
65 ACTCCTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACT
*
2778 CTTTGAGGACTAAA-AGTGCCACCAAC-TCGTGTGGGCTTTGAAAAGAAAAAGGTG
129 CTTTGAGGACTAAAGAGTGCCACCAACATCGTGTGGGC-TTGAAAAAAAAAAGGTG
* * * *
2832 TCCTGCTCTTGAGGACT-AAAGGTGCCACCAACTTATGTGGGCTTTAAAAAGAAAAGGTGTCCTG
1 TCCTGCTCTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAGGCGTCCTA
* *
2896 CTCCTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCTTATTCT
66 CTCCTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCT
*
2961 TTGAGGACTAAAGTGTGCCACCAACATCGTGTGGGCTTGAAAAAAAAAAGGTG
131 TTGAGGACTAAAGAGTGCCACCAACATCGTGTGGGCTTGAAAAAAAAAAGGTG
3014 TCCTGCTCTT
1 TCCTGCTCTT
3024 TAAGGGCTAA
Statistics
Matches: 174, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
181 58 0.33
182 89 0.51
183 19 0.11
184 8 0.05
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (183 bp):
TCCTGCTCTTGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTTAAAAAGAAAAGGCGTCCTA
CTCCTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGGCGTCCTACTCT
TTGAGGACTAAAGAGTGCCACCAACATCGTGTGGGCTTGAAAAAAAAAAGGTG
Found at i:3088 original size:45 final size:45
Alignment explanation
Indices: 3014--3293 Score: 242
Period size: 42 Copynumber: 6.4 Consensus size: 45
3004 AAAAAAGGTG
* *
3014 TCCTGCTCTTTAAGGGCTAAAAGGA-AAAAGAAAGAAATGAAGT-CA
1 TCCTGCTCTTTGAGGAC--AAAGGAGAAAAGAAAGAAATGAAGTGCA
* * * **
3059 TCCTGCTCTTTGAGGACAAAAGGAGAAAAGAAGGGAATGAAATGTG
1 TCCTGCTCTTTGAGGAC-AAAGGAGAAAAGAAAGAAATGAAGTGCA
* *
3105 TCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAGTAA--AA-TGCG
1 TCCTGCTCTTTGAGGACAAAGGAGAAAA-GAAAGAAATGAAGTGCA
* * * * * * *
3148 TCATTCTTTTTGAGGACAAAGGAGAAAAG-GA-AAATAAAGTACG
1 TCCTGCTCTTTGAGGACAAAGGAGAAAAGAAAGAAATGAAGTGCA
*
3191 TCCTGCTC-TTGAGGACAAAGGGGAAAA-AAAGGAAATGAAGTGCA
1 TCCTGCTCTTTGAGGACAAAGGAGAAAAGAAA-GAAATGAAGTGCA
* * * *
3235 TCCTGCTCTTTGAGGA-TAAGG-GGAAAG-AGGAAATAAAGTGCA
1 TCCTGCTCTTTGAGGACAAAGGAGAAAAGAAAGAAATGAAGTGCA
3277 TCCTGCTCTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
3294 TAGGAGGTGC
Statistics
Matches: 195, Mismatches: 28, Indels: 26
0.78 0.11 0.10
Matches are distributed among these distances:
40 2 0.01
41 1 0.01
42 50 0.26
43 41 0.21
44 30 0.15
45 48 0.25
46 23 0.12
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (45 bp):
TCCTGCTCTTTGAGGACAAAGGAGAAAAGAAAGAAATGAAGTGCA
Found at i:3161 original size:43 final size:42
Alignment explanation
Indices: 3062--3217 Score: 143
Period size: 43 Copynumber: 3.6 Consensus size: 42
3052 GAAGTCATCC
* ** *
3062 TGCTCTTTGAGGACAAAAGGAGAAAA-GAAGGGAATGAAATGTGTCC
1 TGCT-TTTGAGGAC-AAAGGAGAAAAGGAA---AATAAAATACGTCA
* *
3108 TGCTCTTTGAGGACAAAGGAGAAAAGGAAAGTAAAATGCGTCA
1 TGCT-TTTGAGGACAAAGGAGAAAAGGAAAATAAAATACGTCA
* * *
3151 TTCTTTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTACGTCC
1 TGC-TTTTGAGGACAAAGGAGAAAAGGAAAATAAAATACGTCA
* *
3194 TGCTCTTGAGGACAAAGGGGAAAA
1 TGCTTTTGAGGACAAAGGAGAAAA
3218 AAAGGAAATG
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
42 19 0.20
43 48 0.50
44 1 0.01
45 11 0.11
46 17 0.18
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.20
Consensus pattern (42 bp):
TGCTTTTGAGGACAAAGGAGAAAAGGAAAATAAAATACGTCA
Found at i:3415 original size:61 final size:61
Alignment explanation
Indices: 3269--3598 Score: 452
Period size: 61 Copynumber: 5.4 Consensus size: 61
3259 AAGAGGAAAT
*
3269 AAAGTGCATCCTGCTCTTTGAGGACTAGGAGGTGCCACCAACTTGTGTGGGCTTT--AAAGAA
1 AAAG-GCATCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAA
* * * * *
3330 GAACG-TTCCTGCTCTTTGAGGACTAAAGGGGGCCACC-ACTTGTGTGGGCTTTAAAAGGAA
1 AAAGGCATCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAAGAA
* * *
3390 AAAGGCATCCTGCTTTTTGAGGACTAAAGGTGCCACCAACTTGCGTGGGCCTTAAAAAGAA
1 AAAGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAA
* *
3451 AAAGGCATCCTGCTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGA
1 AAAGGCATCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAA
** *
3513 AAAGGTGTCCTGCTCTTTTAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAA
1 AAAGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAA
* *
3574 AAAGACATCCTACTCTTTGAGGACT
1 AAAGGCATCCTGCTCTTTGAGGACT
3599 GGAAGGGCTA
Statistics
Matches: 236, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
58 16 0.07
59 27 0.11
60 17 0.07
61 122 0.52
62 54 0.23
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (61 bp):
AAAGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAA
Found at i:3505 original size:123 final size:122
Alignment explanation
Indices: 3269--3598 Score: 445
Period size: 123 Copynumber: 2.7 Consensus size: 122
3259 AAGAGGAAAT
* * * *
3269 AAAGTGCATCCTGCTCTTTGAGGACTAGGAGGTGCCACCAACTTGTGTGGG-CTT-TAAAGAAGA
1 AAAG-GCATCCTGCTTTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCCTTAAAAAGAAAA
* * *
3332 ACG-TTCCTGCTCTTTGAGGACTAAAGGGGGCCACCACTTGTGTGGGCTTT-AAAAGGAA
64 AGGCATCCTGCTCTTTGAGGACTAAAAGGGGCCACCACTTGTGTGGGCTTTAAAAAGG-A
*
3390 AAAGGCATCCTGCTTTTTGAGGACTAAAGGTGCCACCAACTTGCGTGGGCCTTAAAAAGAAAAAG
1 AAAGGCATCCTGCTTTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCCTTAAAAAGAAAAAG
* *
3455 GCATCCTGCTTTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGA
66 GCATCCTGCTCTTTGAGGACTAAAAGGGGCCACC-ACTTGTGTGGGCTTTAAAAAGGA
** *
3513 AAAGGTGTCCTGCTCTTTT-AGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAA
1 AAAGGCATCCTGCT-TTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCCTTAAAAAGAAAAA
* *
3577 GACATCCTACTCTTTGAGGACT
65 GGCATCCTGCTCTTTGAGGACT
3599 GGAAGGGCTA
Statistics
Matches: 186, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
119 21 0.11
120 24 0.13
121 13 0.07
122 28 0.15
123 90 0.48
124 10 0.05
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (122 bp):
AAAGGCATCCTGCTTTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCCTTAAAAAGAAAAAG
GCATCCTGCTCTTTGAGGACTAAAAGGGGCCACCACTTGTGTGGGCTTTAAAAAGGA
Found at i:9978 original size:78 final size:77
Alignment explanation
Indices: 9780--9980 Score: 208
Period size: 79 Copynumber: 2.5 Consensus size: 77
9770 CTGATTATAG
* ** *
9780 AAAATCGGTGTTTTGAAAATAAAATCGGGATTGGAGTATCCCTATGAAAATAACGAGGATTGAGT
1 AAAATCGGTG-TTTAAAAATAAAATCGGG-TTGGAGTATCCCCGTGAAAATAACGAGGATGGAGT
*
9845 ATCCCCGATTGTGA
64 ATCCCCGATTGCGA
* * ** * *
9859 AAAATCGATGCTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCGTGAAAATAATG-GGGTCGGAG
1 AAAATCGGTG-TTTAAAAATAAAATC-GGGTTGGAGTATCCCCGTGAAAATAACGAGGAT-GGAG
9923 TAT-CCCGATTGCGA
63 TATCCCCGATTGCGA
* *
9937 GAAATTGGTGTTTAAAAAATAAAATCGGAGTTGGAGTATCCCCG
1 AAAATCGGTGTTT-AAAAATAAAATCGG-GTTGGAGTATCCCCG
9981 ATTGTGAAAA
Statistics
Matches: 100, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
77 5 0.05
78 44 0.44
79 48 0.48
80 3 0.03
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (77 bp):
AAAATCGGTGTTTAAAAATAAAATCGGGTTGGAGTATCCCCGTGAAAATAACGAGGATGGAGTAT
CCCCGATTGCGA
Found at i:9993 original size:51 final size:51
Alignment explanation
Indices: 9919--10029 Score: 152
Period size: 51 Copynumber: 2.2 Consensus size: 51
9909 TAATGGGGTC
* *
9919 GGAGTAT-CCCGATTGCGAGAAATTGGTGTTTAAAAAATAAAATCGGAGTT
1 GGAGTATCCCCGATTGCGAAAAATTGGTATTTAAAAAATAAAATCGGAGTT
* * * * *
9969 GGAGTATCCCCGATTGTGAAAAATTGTTATTTTAGAAATAAAATCGGGGTT
1 GGAGTATCCCCGATTGCGAAAAATTGGTATTTAAAAAATAAAATCGGAGTT
10020 GGAGTATCCC
1 GGAGTATCCC
10030 TTCGGAAATA
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
50 7 0.13
51 46 0.87
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
GGAGTATCCCCGATTGCGAAAAATTGGTATTTAAAAAATAAAATCGGAGTT
Found at i:10068 original size:28 final size:29
Alignment explanation
Indices: 10037--10092 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
10027 CCCTTCGGAA
*
10037 ATAACGGGATTAGAGTATCCCC-GATTAC
1 ATAACGGGATTAGAGTACCCCCTGATTAC
* *
10065 ATAACGGGGTTGGAGTACCCCCTGATTA
1 ATAACGGGATTAGAGTACCCCCTGATTA
10093 TGAAAAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 19 0.79
29 5 0.21
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (29 bp):
ATAACGGGATTAGAGTACCCCCTGATTAC
Found at i:10165 original size:28 final size:28
Alignment explanation
Indices: 10125--10194 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
10115 ATAAAGCCGG
10125 GGTTGGAGTATCCCCTCA-GAAATAACGA
1 GGTTGGAGTATCCCC-CATGAAATAACGA
* *
10153 GGTTGGAGTATCCCCGATGAAATAACGG
1 GGTTGGAGTATCCCCCATGAAATAACGA
10181 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
10195 AAATTGTGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (28 bp):
GGTTGGAGTATCCCCCATGAAATAACGA
Found at i:10178 original size:109 final size:107
Alignment explanation
Indices: 9966--10246 Score: 314
Period size: 109 Copynumber: 2.6 Consensus size: 107
9956 TAAAATCGGA
* * *** * *
9966 GTTGGAGTATCCCCGATTGTGAAAAATTGTTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCT
1 GTTGGAGTACCCCCGATTATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
* * *
10031 TCGGAAATAACGGGATTAGAGTATCCCCGATTACATAACGGG
66 TCAGAAATAACGGGATTAGAGTATCCCCGATGAAATAACGGG
* *
10073 GTTGGAGTACCCCCTGATTATGAAAAAATCAATATTTTAGATATAAAGCCGGGGTTGGAGTATCC
1 GTTGGAGTACCCCC-GATTATG-AAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCC
*
10138 CCTCAGAAATAACGAGG-TTGGAGTATCCCCGATGAAATAACGGG
64 CCTCAGAAATAACG-GGATTAGAGTATCCCCGATGAAATAACGGG
* ** * * * * * *
10182 GTTGGAGTATCCCAAATTGTGAAAAAAT-GATGTTTTGGAAATAAAATCGGAGTTGGAGTATCCC
1 GTTGGAGTACCCCCGATTATG-AAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCC
10246 C
65 C
10247 GATTGCGGTA
Statistics
Matches: 147, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
107 43 0.29
108 18 0.12
109 84 0.57
110 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (107 bp):
GTTGGAGTACCCCCGATTATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
TCAGAAATAACGGGATTAGAGTATCCCCGATGAAATAACGGG
Found at i:10325 original size:51 final size:51
Alignment explanation
Indices: 10182--10350 Score: 203
Period size: 51 Copynumber: 3.3 Consensus size: 51
10172 AAATAACGGG
** * *
10182 GTTGGAGTATCCCAAATTGTGAAAAAATGATGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATAAAATCGGA
* ** ** * *
10233 GTTGGAGTATCCCCGATTGCGGTAAATCAATGCTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATAAAATCGGA
* * *
10284 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAACCGGA
1 GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATAAAATCGGA
*
10335 ATTGGAGTATCCCCGA
1 GTTGGAGTATCCCCGA
10351 GATGAAAAAT
Statistics
Matches: 97, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 97 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGAGAAAAATTGATGTTTTGGAAATAAAATCGGA
Found at i:12668 original size:13 final size:13
Alignment explanation
Indices: 12650--12675 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12640 TGTATTAATA
12650 TATCGATACAATG
1 TATCGATACAATG
12663 TATCGATACAATG
1 TATCGATACAATG
12676 AGTAATGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:12702 original size:20 final size:20
Alignment explanation
Indices: 12659--12712 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
12649 ATATCGATAC
*
12659 AATGTATCGATACAATGAGT
1 AATGTATCGATACAATGAGA
12679 AATGTATCGATACAATGCA-A
1 AATGTATCGATACAATG-AGA
*
12699 AATGTATCAATACA
1 AATGTATCGATACA
12713 TCTGGGTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:21460 original size:28 final size:28
Alignment explanation
Indices: 21416--21937 Score: 532
Period size: 28 Copynumber: 18.3 Consensus size: 28
21406 TCTAGAACAT
21416 CATCTCTTT-AAAGCCCACAAGTCAGTGG
1 CATCT-TTTCAAAGCCCACAAGTCAGTGG
*
21444 CATCTTTTCAAAACCCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
*
21472 CATCTTTTCAAAGCCCACAAGTCAGTGA
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* *
21500 CACCTTTTCAAAGCCCACAAGTCATTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* * *
21528 CACCCTTTCAAAGCCCACAAGTTAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
21556 CATCTTTTCAAAGCCCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
21584 CATCTTTTCAAAGCCCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* * * *
21612 CACCCTATCAAAGCTCACAAG-CTAGTGG
1 CATCTTTTCAAAGCCCACAAGTC-AGTGG
*
21640 CACCCTTTT-AAAGCCCACAAGTCAGTGG
1 CA-TCTTTTCAAAGCCCACAAGTCAGTGG
* *
21668 CATCCTTTCAAAGCCCACAAGTCAATGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* * **
21696 TATCTCTTCAAAAGATCACAAGTCAGTGG
1 CATCTTTTC-AAAGCCCACAAGTCAGTGG
*
21725 CATCCTTTT-AAAGCCCACAAGTCAATGG
1 CAT-CTTTTCAAAGCCCACAAGTCAGTGG
* * *
21753 TACCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
** *
21781 CATACCCCTTCAAAGCCCACAAGTTAGTGG
1 CAT--CTTTTCAAAGCCCACAAGTCAGTGG
* *
21811 CACCCTTTCAAAGCCCACAAGTCAGTGG
1 CATCTTTTCAAAGCCCACAAGTCAGTGG
* * **
21839 CATACCCTTTCAAAGCTCACAAGTTGGTGG
1 CAT--CTTTTCAAAGCCCACAAGTCAGTGG
* * * * * *
21869 CACCCTTTCGAAGCTTACACAAGTCGGTGA
1 CATCTTTTCAAAGC--CCACAAGTCAGTGG
*
21899 CAACTCTTTTCAAAGCCCGTACAAGTTAGTGG
1 C-A-TCTTTTCAAAGCCC--ACAAGTCAGTGG
21931 CA-CTTTT
1 CATCTTTT
21938 TTTAAAAAAA
Statistics
Matches: 416, Mismatches: 60, Indels: 35
0.81 0.12 0.07
Matches are distributed among these distances:
27 12 0.03
28 289 0.69
29 28 0.07
30 66 0.16
31 2 0.00
32 19 0.05
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
CATCTTTTCAAAGCCCACAAGTCAGTGG
Found at i:22803 original size:20 final size:20
Alignment explanation
Indices: 22778--22830 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
22768 TTACCCAGAT
*
22778 GTATCGATACATTTTTCAAC
1 GTATCGATACATTTATCAAC
* * *
22798 GTATCGATACATGTATGAAT
1 GTATCGATACATTTATCAAC
22818 GTATCGATACATT
1 GTATCGATACATT
22831 CTGTCTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
GTATCGATACATTTATCAAC
Found at i:23573 original size:63 final size:63
Alignment explanation
Indices: 23474--23598 Score: 241
Period size: 63 Copynumber: 2.0 Consensus size: 63
23464 ACTTGTTTTC
*
23474 AGCCACACAAAGGTGTTAAACAAGTTACATTACTTGTTTAAGCTAACAAATCAGATTTCTATT
1 AGCCACACAAAGGTGTTAAACAAGTTACATTACTTGTTTAAGCCAACAAATCAGATTTCTATT
23537 AGCCACACAAAGGTGTTAAACAAGTTACATTACTTGTTTAAGCCAACAAATCAGATTTCTAT
1 AGCCACACAAAGGTGTTAAACAAGTTACATTACTTGTTTAAGCCAACAAATCAGATTTCTAT
23599 CTTGTTGGTA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.30
Consensus pattern (63 bp):
AGCCACACAAAGGTGTTAAACAAGTTACATTACTTGTTTAAGCCAACAAATCAGATTTCTATT
Found at i:23662 original size:17 final size:17
Alignment explanation
Indices: 23640--23676 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
23630 TCACTTGCTG
23640 ATTTTGTTATTCTCATC
1 ATTTTGTTATTCTCATC
23657 ATTTTGTTATTCTCATC
1 ATTTTGTTATTCTCATC
23674 ATT
1 ATT
23677 ACTTGTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.19, C:0.16, G:0.05, T:0.59
Consensus pattern (17 bp):
ATTTTGTTATTCTCATC
Found at i:23787 original size:172 final size:172
Alignment explanation
Indices: 23501--23833 Score: 666
Period size: 172 Copynumber: 1.9 Consensus size: 172
23491 AAACAAGTTA
23501 CATTACTTGTTTAAGCTAACAAATCAGATTTCTATTAGCCACACAAAGGTGTTAAACAAGTTACA
1 CATTACTTGTTTAAGCTAACAAATCAGATTTCTATTAGCCACACAAAGGTGTTAAACAAGTTACA
23566 TTACTTGTTTAAGCCAACAAATCAGATTTCTATCTTGTTGGTATATTTTTAAACTTTTTCACTTT
66 TTACTTGTTTAAGCCAACAAATCAGATTTCTATCTTGTTGGTATATTTTTAAACTTTTTCACTTT
23631 CACTTGCTGATTTTGTTATTCTCATCATTTTGTTATTCTCAT
131 CACTTGCTGATTTTGTTATTCTCATCATTTTGTTATTCTCAT
23673 CATTACTTGTTTAAGCTAACAAATCAGATTTCTATTAGCCACACAAAGGTGTTAAACAAGTTACA
1 CATTACTTGTTTAAGCTAACAAATCAGATTTCTATTAGCCACACAAAGGTGTTAAACAAGTTACA
23738 TTACTTGTTTAAGCCAACAAATCAGATTTCTATCTTGTTGGTATATTTTTAAACTTTTTCACTTT
66 TTACTTGTTTAAGCCAACAAATCAGATTTCTATCTTGTTGGTATATTTTTAAACTTTTTCACTTT
23803 CACTTGCTGATTTTGTTATTCTCATCATTTT
131 CACTTGCTGATTTTGTTATTCTCATCATTTT
23834 AGTGAGCTTT
Statistics
Matches: 161, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
172 161 1.00
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (172 bp):
CATTACTTGTTTAAGCTAACAAATCAGATTTCTATTAGCCACACAAAGGTGTTAAACAAGTTACA
TTACTTGTTTAAGCCAACAAATCAGATTTCTATCTTGTTGGTATATTTTTAAACTTTTTCACTTT
CACTTGCTGATTTTGTTATTCTCATCATTTTGTTATTCTCAT
Found at i:27100 original size:6 final size:6
Alignment explanation
Indices: 27089--27119 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
27079 AGTCGAAGGC
27089 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA A
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA A
27120 TAGACTAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:30964 original size:16 final size:17
Alignment explanation
Indices: 30943--30976 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
30933 ACCAACACAA
30943 GCTATTATGCT-GTTTT
1 GCTATTATGCTGGTTTT
*
30959 GCTATTTTGCTGGTTTT
1 GCTATTATGCTGGTTTT
30976 G
1 G
30977 GAGAGACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.09, C:0.12, G:0.24, T:0.56
Consensus pattern (17 bp):
GCTATTATGCTGGTTTT
Found at i:32566 original size:49 final size:49
Alignment explanation
Indices: 32502--33207 Score: 828
Period size: 49 Copynumber: 14.8 Consensus size: 49
32492 ACAAAGGCAT
*
32502 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGC
* *
32551 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT---AAAGGTGC
*
32603 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGC
* * *
32646 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGC
* * *
32695 CAATGTGCTGATTCAAGGCCAGCTACATTGCACTTAAAGATGAAA-GTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-AAAGGTGC
* *
32744 CAATATGTTGATTCAAGGCCAGCGATATTGGAC-T-----TAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGC
* * * *
32787 CAATGTGCTGATTCAAGGCCAGCTACATTGGTCTTAAAGACAAA-GTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGC
* * * *
32835 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGGT-GAGGTGT
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGC
* ** * * *
32883 CAATGTATTGATTCAAGGCCAACTACATTAGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGC
* * *
32932 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGGT-GAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGC
* * *
32980 CAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGC
*
33029 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA-AGTGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA-TAAAGGTGC
* * *
33078 CAATATGCTGATTCAAGGCCAACGATATTGGGC-T-----TAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGC
* * *
33121 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTTC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGC
* * *
33170 TAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
33208 AGGGTTGCCA
Statistics
Matches: 560, Mismatches: 70, Indels: 54
0.82 0.10 0.08
Matches are distributed among these distances:
42 3 0.01
43 107 0.19
44 3 0.01
46 1 0.00
47 1 0.00
48 121 0.22
49 281 0.50
50 2 0.00
51 1 0.00
52 40 0.07
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGC
Found at i:33106 original size:334 final size:332
Alignment explanation
Indices: 32441--33207 Score: 1083
Period size: 334 Copynumber: 2.3 Consensus size: 332
32431 AAGATGAGAA
* * * * * * ***
32441 AAAGGATGTCAATGTGTTGATTCACGGTCAGCGACATTAGACTTAAATATGACAAAGGCATCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A-GACAAAGGTGCCAAT
* *
32506 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
62 ATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATAAAGGTGCCAATATACTGATTCAAGGCC
* *
32571 AGCGACATTGGACTTAAAGATGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
127 AACGACATTAGACTTAAAGAT--AAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
32636 TTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGT
190 TTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATAT
* *
32701 GCTGATTCAAGGCCAGCTACATTGCACTTAAAGATGAAAGTGCCAATATGTTGATTCAAGGCCAG
255 GCTGATTCAAGGCCAGCTACATTGCACTTAAAGATGAAAGTGCCAATATGCTGATTCAAGGCCAA
32766 CGATATTGGACTT
320 CGATATTGGACTT
*
32779 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGTCTTAAAGACAAA-GTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGACAAAGGTGCCAATATGC
* * * * * * *
32843 TGATTCAAGGCCAGCTATATTGGGCTTAAAGGT-GAGGTGTCAATGTATTGATTCAAGGCCAACT
66 TGATTCAAGGCCAGCGATATTGGGCTTAAAGATAAAGGTGCCAATATACTGATTCAAGGCCAACG
* *
32907 ACATTAGACTTAAAGAT-AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAG
131 ACATTAGACTTAAAGATAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-
*
32971 GTGAGGTGCCAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATAAAGGTGCCAATATG
194 ---AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATG
* * *
33036 CTGATTCAAGGCCAGCTATATTGGACTTAAA-AGTGAAGGTGCCAATATGCTGATTCAAGGCCAA
256 CTGATTCAAGGCCAGCTACATTGCACTTAAAGA-TGAAAGTGCCAATATGCTGATTCAAGGCCAA
*
33100 CGATATTGGGCTT
320 CGATATTGGACTT
* * *
33113 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTTCTAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGACAAAGGTGCCAATATGC
33178 TGATTCAAGGCCAGCGATATTGGGCTTAAA
66 TGATTCAAGGCCAGCGATATTGGGCTTAAA
33208 AGGGTTGCCA
Statistics
Matches: 385, Mismatches: 37, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
329 41 0.11
330 2 0.01
332 40 0.10
333 40 0.10
334 184 0.48
335 40 0.10
336 2 0.01
337 31 0.08
338 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (332 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGACAAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGGCTTAAAGATAAAGGTGCCAATATACTGATTCAAGGCCAACG
ACATTAGACTTAAAGATAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGAT
TCAAGGCCAGCTACATTGCACTTAAAGATGAAAGTGCCAATATGCTGATTCAAGGCCAACGATAT
TGGACTT
Found at i:33156 original size:92 final size:91
Alignment explanation
Indices: 32502--33207 Score: 697
Period size: 92 Copynumber: 7.4 Consensus size: 91
32492 ACAAAGGCAT
*
32502 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGAC-T-----TAAAGGTGCCAATATGCTGATTCAA
* *
32567 GGCCAGCGACATTGGACTTAAAGATGAAAAAGGTGC
60 GGCCAGCTATATTGGACTTAAAG-TG---AAGGTGC
* *
32603 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAG
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAG
*
32668 CTACATTGGACTTAAAGATGAAGGTGC
66 CTATATTGGACTTAAAG-TGAAGGTGC
* * * *
32695 CAATGTGCTGATTCAAGGCCAGCTACATTGCACTTAAAGATGAAAGTGCCAATATGTTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AA-A-G---GTGCCAATATGCTGATTCAA
*
32760 GGCCAGCGATATTGGACTT--A---AAGGTGC
60 GGCCAGCTATATTGGACTTAAAGTGAAGGTGC
* * *
32787 CAATGTGCTGATTCAAGGCCAGCTACATTGGTCTTAAAGACAAAGTGCCAATATGCTGATTCAAG
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG-----GTGCCAATATGCTGATTCAAG
* *
32852 GCCAGCTATATTGGGCTTAAAGGTG-AGGTGT
61 GCCAGCTATATTGGACTTAAA-GTGAAGGTGC
* ** * * *
32883 CAATGTATTGATTCAAGGCCAACTACATTAGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGAC-T-----TAAAGGTGCCAATATGCTGATTCAA
*
32948 GGCCAGCTATATTGGGCTTAAAGGTG-AGGTGC
60 GGCCAGCTATATTGGACTTAAA-GTGAAGGTGC
* * *
32980 CAATGTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGAC-T-----TAAAGGTGCCAATATGCTGATTCAA
33045 GGCCAGCTATATTGGACTTAAAAGTGAAGGTGC
60 GGCCAGCTATATTGGACTT-AAAGTGAAGGTGC
* * * *
33078 CAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAAGGTGCCAATGTGCTGATTCAAGGCCAG
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAG
* * *
33143 CTACATTGGACTTAAAGATAAAGGTTC
66 CTATATTGGACTTAAAG-TGAAGGTGC
* * *
33170 TAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAA
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
33208 AGGGTTGCCA
Statistics
Matches: 542, Mismatches: 40, Indels: 55
0.85 0.06 0.09
Matches are distributed among these distances:
89 1 0.00
90 1 0.00
91 45 0.08
92 163 0.30
93 3 0.01
94 1 0.00
95 50 0.09
96 34 0.06
97 134 0.25
98 71 0.13
100 1 0.00
101 33 0.06
102 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (91 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGGTGCCAATATGCTGATTCAAGGCCAG
CTATATTGGACTTAAAGTGAAGGTGC
Found at i:33249 original size:33 final size:33
Alignment explanation
Indices: 33210--33304 Score: 172
Period size: 33 Copynumber: 2.9 Consensus size: 33
33200 GGCTTAAAAG
33210 GGTTGCCACCAACTTGTGTGGGCTTTAGAGAAT
1 GGTTGCCACCAACTTGTGTGGGCTTTAGAGAAT
33243 GGTTGCCACCAACTTGTGTGGGCTTTAGAGAAT
1 GGTTGCCACCAACTTGTGTGGGCTTTAGAGAAT
* *
33276 GGTTGCCACCGACTTATGTGGGCTTTAGA
1 GGTTGCCACCAACTTGTGTGGGCTTTAGA
33305 AGGGGGTGCC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 60 1.00
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.31
Consensus pattern (33 bp):
GGTTGCCACCAACTTGTGTGGGCTTTAGAGAAT
Found at i:33374 original size:34 final size:34
Alignment explanation
Indices: 33311--33561 Score: 227
Period size: 34 Copynumber: 7.6 Consensus size: 34
33301 TAGAAGGGGG
* * * *
33311 TGCCACAGGGTTGT-GGATTTAAAAGGAAAAATA
1 TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGA
*
33344 TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGG
1 TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGA
* * * *
33378 TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAGGA
1 TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGA
*
33411 TGCCACAGAGTTGTGGGCTTTTTAAAAAGAAAAAGG
1 TGCCACAGAGTTGTGGGC--TTTAAAAAGAAAAAGA
* * * *
33447 TGCCACGGAGTTGTGGACTTT-TAAGGAAAAAGA
1 TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGA
*
33480 GTGCCACAGAGTTGTGGGC-TT-AAAAG-----GG
1 -TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGA
* * *
33508 TGCCACGGAGTTGTGGAC-TTAAAAAGATAAAGA
1 TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGA
33541 GTGCCACAGAGTTGTGGGCTT
1 -TGCCACAGAGTTGTGGGCTT
33562 GAGGGCTTGA
Statistics
Matches: 175, Mismatches: 30, Indels: 24
0.76 0.13 0.10
Matches are distributed among these distances:
27 18 0.10
28 6 0.03
33 56 0.32
34 66 0.38
35 1 0.01
36 28 0.16
ACGTcount: A:0.34, C:0.12, G:0.31, T:0.23
Consensus pattern (34 bp):
TGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGA
Found at i:33391 original size:67 final size:68
Alignment explanation
Indices: 33309--33561 Score: 346
Period size: 61 Copynumber: 3.8 Consensus size: 68
33299 TTTAGAAGGG
* *
33309 GGTGCCACAGG-GTTGTGGATTTAAAAGGAAAAATA-TGCCACAGAGTTGTGGGCTTTAAAAAGA
1 GGTGCCAC-GGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGA
33372 AAAA
65 AAAA
*
33376 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGA-TGCCACAGAGTTGTGGGCTTTTTAAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGC--TTTAAAAAG
33440 AAAAA
64 AAAAA
**
33445 GGTGCCACGGAGTTGTGGACTTTTAAGGAAAAAGAGTGCCACAGAGTTGTGGGC-TT-AAAAG--
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
33506 ---
66 AAA
* *
33506 GGTGCCACGGAGTTGTGGACTTAAAAAGATAAAGAGTGCCACAGAGTTGTGGGCTT
1 GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
33562 GAGGGCTTGA
Statistics
Matches: 171, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
61 50 0.29
62 1 0.01
66 7 0.04
67 49 0.29
69 46 0.27
70 18 0.11
ACGTcount: A:0.34, C:0.12, G:0.32, T:0.23
Consensus pattern (68 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAA
AAA
Found at i:33451 original size:103 final size:95
Alignment explanation
Indices: 33308--33561 Score: 280
Period size: 103 Copynumber: 2.6 Consensus size: 95
33298 CTTTAGAAGG
* * **
33308 GGGTGCCACAGGGTTGTGGA-TTTAAAAGGAAAAATATGCCACAGAGTTGTGGGCTTTAAAAAGA
1 GGGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTT-AAAAGA
*
33372 AAAAG-GTGCCACGGAGTTGTGGACTTAAAA
65 AAAAGAGTGCCACAGAGTTGTGGACTTAAAA
* * *
33402 GGAAAAGGATGCCACAGAGTTGTGGGCTTTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
1 -G----GG-TGCCACAGAGTTGTGGAC--TTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTT
* * *
33467 TTAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAA
58 TAAAAGAAAAAGAGTGCCACAGAGTTGTGGACTTAAAA
* *
33505 GGGTGCCACGGAGTTGTGGAC-TTAAAAAGATAAAGAGTGCCACAGAGTTGTGGGCTT
1 GGGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAG-GTGCCACAGAGTTGTGGGCTT
33562 GAGGGCTTGA
Statistics
Matches: 133, Mismatches: 16, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
94 13 0.10
95 20 0.15
97 16 0.12
98 2 0.02
99 2 0.02
100 15 0.11
102 10 0.08
103 55 0.41
ACGTcount: A:0.33, C:0.12, G:0.32, T:0.22
Consensus pattern (95 bp):
GGGTGCCACAGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAGAA
AAAGAGTGCCACAGAGTTGTGGACTTAAAA
Found at i:33504 original size:27 final size:27
Alignment explanation
Indices: 33474--33531 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
33464 CTTTTAAGGA
*
33474 AAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAGAGTGCCACAGAGTTGTGGACTT
* *
33501 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGAGTGCCACAGAGTTGTGGACTT
33528 AAAA
1 AAAA
33532 AGATAAAGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.21
Consensus pattern (27 bp):
AAAAGAGTGCCACAGAGTTGTGGACTT
Found at i:33698 original size:33 final size:33
Alignment explanation
Indices: 33648--33829 Score: 192
Period size: 33 Copynumber: 5.6 Consensus size: 33
33638 GGGAAGAGAT
* * *
33648 TGCCACTTAGTTGTGGACTTGGAAAAAAAAAGA
1 TGCCACTGAGTCGTGGACTTAGAAAAAAAAAGA
* *
33681 TGCCACTGAGTCATGGACTTAG-AGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTAGAAAAAAAAAGA
* * *
33713 TGCCACTGAGTTGTGGATTTTGAAGAAAAAAAGA
1 TGCCACTGAGTCGTGGACTTAGAA-AAAAAAAGA
* * * *
33747 TGCCATTGAGTCGTGGACTTACAAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTAGAAAAAAAAAGA
*
33780 TGCCACTGAGTCGTGGACTTAG---AAAAGAGA
1 TGCCACTGAGTCGTGGACTTAGAAAAAAAAAGA
* *
33810 TGCCACTTAGTTGTGGACTT
1 TGCCACTGAGTCGTGGACTT
33830 TGAGAAGAGA
Statistics
Matches: 126, Mismatches: 21, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
30 26 0.21
32 27 0.21
33 46 0.37
34 27 0.21
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.24
Consensus pattern (33 bp):
TGCCACTGAGTCGTGGACTTAGAAAAAAAAAGA
Found at i:33698 original size:97 final size:96
Alignment explanation
Indices: 33577--33840 Score: 272
Period size: 99 Copynumber: 2.7 Consensus size: 96
33567 CTTGAAAGGG
* * *
33577 AAAAAGGTGCCACAGAGTCGTGGACTTA-AAAAGAGCAAGTTGCCACAGAGTTGTGGACTTTGGG
1 AAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAG-AAG-TGCCACTGAGTTGTGGACTTTGGG
* **
33641 AAGAGATTGCCACTT-AGTTGTGGACTTGGAAAA
64 AAGAGATTGCCA-TTGAGTCGTGGACTTACAAAA
* *
33674 AAAAAGATGCCACTGAGTCATGGACTTAGAGAAA-A-AAGATGCCACTGAGTTGTGGATTTTGAA
1 AAAAAGATGCCACTGAGTCGTGGACTTAGA-AAAGAGAAG-TGCCACTGAGTTGTGGACTTTG--
* * *
33737 GAAAAAAAGA-TGCCATTGAGTCGTGGACTTACAAGA
62 G--GAAGAGATTGCCATTGAGTCGTGGACTTACAAAA
* * *
33773 AAAGAGATGCCACTGAGTCGTGGACTTAGAAAAGAG-A-TGCCACTTAGTTGTGGACTTTGAGAA
1 AAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGAAGTGCCACTGAGTTGTGGACTTTGGGAA
33836 GAGAT
66 GAGAT
33841 GTGAAGAATT
Statistics
Matches: 138, Mismatches: 19, Indels: 23
0.77 0.11 0.13
Matches are distributed among these distances:
93 5 0.04
96 23 0.17
97 45 0.33
98 8 0.06
99 52 0.38
100 5 0.04
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.23
Consensus pattern (96 bp):
AAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGAAGTGCCACTGAGTTGTGGACTTTGGGAA
GAGATTGCCATTGAGTCGTGGACTTACAAAA
Found at i:33764 original size:66 final size:66
Alignment explanation
Indices: 33648--33805 Score: 219
Period size: 66 Copynumber: 2.4 Consensus size: 66
33638 GGGAAGAGAT
* *
33648 TGCCACTTAGTTGTGGACTTGGAAAAAAAAAGATGCCACTGAGTCATGGACTTA-GAGAAAAAAG
1 TGCCACTGAGTTGTGGACTTGGAAAAAAAAAGATGCCACTGAGTCATGGACTTACAAGAAAAAAG
33712 A
66 A
* * * * *
33713 TGCCACTGAGTTGTGGATTTTGAAGAAAAAAAGATGCCATTGAGTCGTGGACTTACAAGAAAAGA
1 TGCCACTGAGTTGTGGACTTGGAA-AAAAAAAGATGCCACTGAGTCATGGACTTACAAGAAAAAA
33778 GA
65 GA
* *
33780 TGCCACTGAGTCGTGGACTTAGAAAA
1 TGCCACTGAGTTGTGGACTTGGAAAA
33806 GAGATGCCAC
Statistics
Matches: 81, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
65 21 0.26
66 30 0.37
67 30 0.37
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (66 bp):
TGCCACTGAGTTGTGGACTTGGAAAAAAAAAGATGCCACTGAGTCATGGACTTACAAGAAAAAAG
A
Found at i:33853 original size:97 final size:94
Alignment explanation
Indices: 33576--33843 Score: 265
Period size: 97 Copynumber: 2.8 Consensus size: 94
33566 GCTTGAAAGG
* * * *
33576 GAAAAAGGTGCCACAGAGTCGTGGACTTA-AAAAGAGCAAGTTGCCACAGAGTTGTGGACTTTGG
1 GAAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAG--A--TGCCACTGAGTTGTGGACTTTGA
* *
33640 GAAGAGAT-TGCCACTT-AGTTGTGGACTTGGA-AA
62 GAAGAGATGTG-CAATTGAGTCGTGGACTT--ACAA
* * * *
33673 AAAAAAGATGCCACTGAGTCATGGACTTAGAGAAAAAAGATGCCACTGAGTTGTGGATTTTGAAG
1 GAAAAAGATGCCACTGAGTCGTGGACTT--AGAAAAGAGATGCCACTGAGTTGTGGACTTTG-AG
* * * *
33738 AAAAAAAGATGCCATTGAGTCGTGGACTTACAA
63 AAGAGATG-TGCAATTGAGTCGTGGACTTACAA
*
33771 GAAAAGAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTTAGTTGTGGACTTTGAGAA
1 GAAAA-AGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAGAA
33836 GAGATGTG
65 GAGATGTG
33844 AAGAATTGAG
Statistics
Matches: 140, Mismatches: 22, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
95 2 0.01
96 27 0.19
97 59 0.42
98 10 0.07
99 36 0.26
100 6 0.04
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (94 bp):
GAAAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAGAAG
AGATGTGCAATTGAGTCGTGGACTTACAA
Found at i:35171 original size:4 final size:4
Alignment explanation
Indices: 35154--35199 Score: 51
Period size: 4 Copynumber: 11.8 Consensus size: 4
35144 CCTTTGCATT
* *
35154 TTTG TTTT TTTG TTTG TTT- TTTG TTT- TTTT TTTG TTTG TTTTG TTT
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG -TTTG TTT
35200 TTTATGTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
3 6 0.17
4 26 0.72
5 4 0.11
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (4 bp):
TTTG
Found at i:35174 original size:19 final size:20
Alignment explanation
Indices: 35152--35208 Score: 82
Period size: 19 Copynumber: 2.9 Consensus size: 20
35142 TGCCTTTGCA
35152 TTTTTGTTTTTTTGTTTG-T
1 TTTTTGTTTTTTTGTTTGTT
35171 TTTTTGTTTTTTT-TTTGTT
1 TTTTTGTTTTTTTGTTTGTT
35190 TGTTTTGTTTTTTATGTTT
1 T-TTTTGTTTTTT-TGTTT
35209 ACTTTTGACT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.12
19 15 0.44
20 11 0.32
21 1 0.03
22 3 0.09
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.84
Consensus pattern (20 bp):
TTTTTGTTTTTTTGTTTGTT
Found at i:35175 original size:11 final size:11
Alignment explanation
Indices: 35154--35195 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
35144 CCTTTGCATT
35154 TTTGTTTTTTTG
1 TTTG-TTTTTTG
35166 TTTGTTTTTTG
1 TTTGTTTTTTG
*
35177 TTTTTTTTTTG
1 TTTGTTTTTTG
35188 TTTGTTTT
1 TTTGTTTT
35196 GTTTTTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
11 24 0.86
12 4 0.14
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (11 bp):
TTTGTTTTTTG
Found at i:35176 original size:27 final size:27
Alignment explanation
Indices: 35152--35202 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
35142 TGCCTTTGCA
35152 TTTTTGTTTT-TTTG-TTTGTTTTTTG
1 TTTTTGTTTTGTTTGTTTTGTTTTTTG
*
35177 TTTTTTTTTTGTTTGTTTTGTTTTTT
1 TTTTTGTTTTGTTTGTTTTGTTTTTT
35203 ATGTTTACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 9 0.39
26 4 0.17
27 10 0.43
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (27 bp):
TTTTTGTTTTGTTTGTTTTGTTTTTTG
Found at i:38662 original size:20 final size:20
Alignment explanation
Indices: 38639--38711 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
38629 ACAATTCAAA
38639 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
* ****
38659 GTATCAATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
38680 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
38700 GTATCGATACAT
1 GTATCGATACAT
38712 AAAAAAGATG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:38683 original size:21 final size:21
Alignment explanation
Indices: 38657--38732 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
38647 ACATGTTGCA
*
38657 ATGTATCAATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
38678 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
38698 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
38719 ATGTATCGATACAT
1 ATGTATCGATACAT
38733 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:38689 original size:41 final size:41
Alignment explanation
Indices: 38639--38732 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
38629 ACAATTCAAA
*
38639 GTATCGATACATGTTGCAATGTATCAATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCAATACATAAAAAAGAT
*
38680 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCAATACATAAAAAAGAT
38721 GTATCGATACAT
1 GTATCGATACAT
38733 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCAATACATAAAAAAGAT
Found at i:42865 original size:15 final size:15
Alignment explanation
Indices: 42845--42875 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
42835 TAAAAATGTC
*
42845 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
42860 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
42875 C
1 C
42876 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:44973 original size:13 final size:13
Alignment explanation
Indices: 44955--44993 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
44945 CATTTTTATT
44955 TGTATCGATACAA
1 TGTATCGATACAA
*
44968 TGTATCGATACAC
1 TGTATCGATACAA
44981 TGTATCGATACAA
1 TGTATCGATACAA
44994 GGTGTTTATT
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:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:46820 original size:31 final size:31
Alignment explanation
Indices: 46785--46845 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
46775 AATTTTGATA
46785 TGAATTACTTGATTAAGGGGGAGATTTTTTT
1 TGAATTACTTGATTAAGGGGGAGATTTTTTT
46816 TGAATTACTTGATTAAGGGGGAGATTTTTT
1 TGAATTACTTGATTAAGGGGGAGATTTTTT
46846 AATAAACGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.44
Consensus pattern (31 bp):
TGAATTACTTGATTAAGGGGGAGATTTTTTT
Found at i:47490 original size:20 final size:20
Alignment explanation
Indices: 47467--47539 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
47457 ACAATTCAAA
47467 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
47487 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
47508 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
47528 GTATCGATACAT
1 GTATCGATACAT
47540 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:47511 original size:21 final size:21
Alignment explanation
Indices: 47485--47560 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
47475 ACATGTTGCA
47485 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
47506 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
47526 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
47547 ATGTATCGATACAT
1 ATGTATCGATACAT
47561 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:47518 original size:41 final size:41
Alignment explanation
Indices: 47467--47560 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
47457 ACAATTCAAA
*
47467 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
47508 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
47549 GTATCGATACAT
1 GTATCGATACAT
47561 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:47617 original size:13 final size:13
Alignment explanation
Indices: 47599--47624 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47589 TACAGCAAGT
47599 ATGTATCGATACA
1 ATGTATCGATACA
47612 ATGTATCGATACA
1 ATGTATCGATACA
47625 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:54686 original size:13 final size:13
Alignment explanation
Indices: 54656--54680 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54646 GAAAGAATTG
54656 AAGAGAGATACAA
1 AAGAGAGATACAA
54669 AAGAGAGATACA
1 AAGAGAGATACA
54681 TGAGAGGGAG
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:0.60, C:0.08, G:0.24, T:0.08
Consensus pattern (13 bp):
AAGAGAGATACAA
Found at i:54841 original size:27 final size:26
Alignment explanation
Indices: 54746--54847 Score: 109
Period size: 27 Copynumber: 3.9 Consensus size: 26
54736 AAAAATTAGT
* *
54746 CACCAATTTTGACAAA-ACAACA-AGC
1 CACCATTTTTGACAAATACAA-AGAAC
* * * *
54771 CACAATTTTTGACAAACAAAAAAGAAT
1 CACCATTTTTGACAAA-TACAAAGAAC
54798 CACCATTTTTGACAAATACAAAGTAAC
1 CACCATTTTTGACAAATACAAAG-AAC
54825 CACCATTTTTGACAAATACAAAG
1 CACCATTTTTGACAAATACAAAG
54848 GGTGGCTTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
25 14 0.22
26 6 0.09
27 44 0.69
ACGTcount: A:0.48, C:0.22, G:0.08, T:0.23
Consensus pattern (26 bp):
CACCATTTTTGACAAATACAAAGAAC
Found at i:59155 original size:505 final size:505
Alignment explanation
Indices: 58205--59719 Score: 2994
Period size: 505 Copynumber: 3.0 Consensus size: 505
58195 TGCTCATGAC
58205 AAAAGGCGCATTCATCTTTTCCAGTCTGGGTTTCGACTTTGATCTCCCTCTGTTTCCCTTCTTCC
1 AAAAGGCGCATTCATCTTTTCCAGTCTGGGTTTCGACTTTGATCTCCCTCTGTTTCCCTTCTTCC
*
58270 AGTTCTGAGAACGGCCTCTGACCACCAAAGCTTCTGCATTTCTATCAAAGCTTCCTTGTTTGTCT
66 AGTTCTGAGAACGACCTCTGACCACCAAAGCTTCTGCATTTCTATCAAAGCTTCCTTGTTTGTCT
58335 TTCTTCCTTAGTTCATAACTATACAAAGCTGCACATACTTCACTAAGGGATACTGCAGCTTTCCC
131 TTCTTCCTTAGTTCATAACTATACAAAGCTGCACATACTTCACTAAGGGATACTGCAGCTTTCCC
58400 ATGGAGTAGAGTTGTTTCGAGAAACTCAAACTCCTCTGGAAGTGACCCCAACAGCATCAATGCTG
196 ATGGAGTAGAGTTGTTTCGAGAAACTCAAACTCCTCTGGAAGTGACCCCAACAGCATCAATGCTG
58465 ATCCTCATCTTTGAAAGATTCATCAACGTTCATCATATCAGTAACCAGTTGATTGAAACTGGTAA
261 ATCCTCATCTTTGAAAGATTCATCAACGTTCATCATATCAGTAACCAGTTGATTGAAACTGGTAA
58530 TATGATCATTCATAGTGGTACCTGCAACATAGGTGAAGCGAAACAATCGCTTCTTCATATAGAGT
326 TATGATCATTCATAGTGGTACCTGCAACATAGGTGAAGCGAAACAATCGCTTCTTCATATAGAGT
58595 TTATTCTAACTACTCTTCTTCAAGAATTTCTCCTCCAAAGCTGTCCATAACCTACTTGCAAAAGT
391 TTATTCTAACTACTCTTCTTCAAGAATTTCTCCTCCAAAGCTGTCCATAACCTACTTGCAAAAGT
58660 CTCTTTAGAAAAGGCATATCTCTGCTCTCTAGATAGACAGGATCGGATTG
456 CTCTTTAGAAAAGGCATATCTCTGCTCTCTAGATAGACAGGATCGGATTG
58710 AAAAGGCGCATTCATCTTTTCCAGTCTGGGTTTCGACTTTGATCTCCCTCTGTTTCCCTTCTTCC
1 AAAAGGCGCATTCATCTTTTCCAGTCTGGGTTTCGACTTTGATCTCCCTCTGTTTCCCTTCTTCC
58775 AGTTCTGAGAACGACCTCTGACCACCAAAGCTTCTGCATTTCTATCAAAGCTTCCTTGTTTGTCT
66 AGTTCTGAGAACGACCTCTGACCACCAAAGCTTCTGCATTTCTATCAAAGCTTCCTTGTTTGTCT
58840 TTCTTCCTTAGTTCATAACTATACAAAGCTGCACATACTTCACTAAGGGATACTGCAGCTTTCCC
131 TTCTTCCTTAGTTCATAACTATACAAAGCTGCACATACTTCACTAAGGGATACTGCAGCTTTCCC
58905 ATGGAGTAGAGTTGTTTCGAGAAACTCAAACTCCTCTGGAAGTGACCCCAACAGCATCAATGCTG
196 ATGGAGTAGAGTTGTTTCGAGAAACTCAAACTCCTCTGGAAGTGACCCCAACAGCATCAATGCTG
58970 ATCCTCATCTTTGAAAGATTCATCAACGTTCATCATATCAGTAACCAGTTGATTGAAACTGGTAA
261 ATCCTCATCTTTGAAAGATTCATCAACGTTCATCATATCAGTAACCAGTTGATTGAAACTGGTAA
59035 TATGATCATTCATAGTGGTACCTGCAACATAGGTGAAGCGAAACAATCGCTTCTTCATATAGAGT
326 TATGATCATTCATAGTGGTACCTGCAACATAGGTGAAGCGAAACAATCGCTTCTTCATATAGAGT
59100 TTATTCTAACTACTCTTCTTCAAGAATTTCTCCTCCAAAGCTGTCCATAACCTACTTGCAAAAGT
391 TTATTCTAACTACTCTTCTTCAAGAATTTCTCCTCCAAAGCTGTCCATAACCTACTTGCAAAAGT
59165 CTCTTTAGAAAAGGCATATCTCTGCTCTCTAGATAGACAGGATCGGATTG
456 CTCTTTAGAAAAGGCATATCTCTGCTCTCTAGATAGACAGGATCGGATTG
59215 AAAAGGCGCATTCATCTTTTCCAGTCTGGGTTTCGACTTTGATCTCCCTCTGTTTCCCTTCTTCC
1 AAAAGGCGCATTCATCTTTTCCAGTCTGGGTTTCGACTTTGATCTCCCTCTGTTTCCCTTCTTCC
59280 AGTTCTGAGAACGACCTCTGACCACCAAAGCTTCTGCATTTCTATCAAAGCTTCCTTGTTTGTCT
66 AGTTCTGAGAACGACCTCTGACCACCAAAGCTTCTGCATTTCTATCAAAGCTTCCTTGTTTGTCT
59345 TTCTTCCTTAGTTCATAACTATACAAAGCTGCACATACTTCACTAAGGGATACTGCAGCTTTCCC
131 TTCTTCCTTAGTTCATAACTATACAAAGCTGCACATACTTCACTAAGGGATACTGCAGCTTTCCC
59410 ATGGAGTAGAGTTGTTTCGAGAAACTCAAACTCCTCTGGAAGTGACCCCAACAGCATCAATGCTG
196 ATGGAGTAGAGTTGTTTCGAGAAACTCAAACTCCTCTGGAAGTGACCCCAACAGCATCAATGCTG
59475 ATCCTCATCTTTGAAAGATTCATCAACGTTCATCATATCAGTAACCAGTTGATTGAAACTGGTAA
261 ATCCTCATCTTTGAAAGATTCATCAACGTTCATCATATCAGTAACCAGTTGATTGAAACTGGTAA
59540 TATGATCATTCATAGTGGTACCTGCAACATAGGTGAAGCGAAACAATCGCTTCTTCATATAGAGT
326 TATGATCATTCATAGTGGTACCTGCAACATAGGTGAAGCGAAACAATCGCTTCTTCATATAGAGT
* *
59605 TTATTCTGACTGCTCTTCTTCAAGAATTTCTCCTCCAAAGCTGTCCATAACCTACTTGCAAAAGT
391 TTATTCTAACTACTCTTCTTCAAGAATTTCTCCTCCAAAGCTGTCCATAACCTACTTGCAAAAGT
*
59670 CTCTTTAGAAAAGGTATATCTCTGCTCTCTAGATAGACAGGATCGGATTG
456 CTCTTTAGAAAAGGCATATCTCTGCTCTCTAGATAGACAGGATCGGATTG
59720 TACCATATGC
Statistics
Matches: 1006, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
505 1006 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (505 bp):
AAAAGGCGCATTCATCTTTTCCAGTCTGGGTTTCGACTTTGATCTCCCTCTGTTTCCCTTCTTCC
AGTTCTGAGAACGACCTCTGACCACCAAAGCTTCTGCATTTCTATCAAAGCTTCCTTGTTTGTCT
TTCTTCCTTAGTTCATAACTATACAAAGCTGCACATACTTCACTAAGGGATACTGCAGCTTTCCC
ATGGAGTAGAGTTGTTTCGAGAAACTCAAACTCCTCTGGAAGTGACCCCAACAGCATCAATGCTG
ATCCTCATCTTTGAAAGATTCATCAACGTTCATCATATCAGTAACCAGTTGATTGAAACTGGTAA
TATGATCATTCATAGTGGTACCTGCAACATAGGTGAAGCGAAACAATCGCTTCTTCATATAGAGT
TTATTCTAACTACTCTTCTTCAAGAATTTCTCCTCCAAAGCTGTCCATAACCTACTTGCAAAAGT
CTCTTTAGAAAAGGCATATCTCTGCTCTCTAGATAGACAGGATCGGATTG
Found at i:60407 original size:27 final size:27
Alignment explanation
Indices: 60345--60417 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
60335 AAACAACAAG
60345 CCACAATTTTTGACAAACAAAAAAGAA
1 CCACAATTTTTGACAAACAAAAAAGAA
* * * *
60372 TCACAATTTTTGACAAATACAAAATAA
1 CCACAATTTTTGACAAACAAAAAAGAA
*
60399 CCATC-ATTTTTTACAAACA
1 CCA-CAATTTTTGACAAACA
60418 TAAAGAGTGG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 37 0.97
28 1 0.03
ACGTcount: A:0.49, C:0.19, G:0.04, T:0.27
Consensus pattern (27 bp):
CCACAATTTTTGACAAACAAAAAAGAA
Found at i:60764 original size:23 final size:24
Alignment explanation
Indices: 60720--60770 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
60710 TTATATTATA
*
60720 AAAAAATTTTAAAAATTCAACAA-T
1 AAAAAATTTTAAAAA-TAAACAAGT
60744 AAAAAATTTTATAAAA-AAACAAGT
1 AAAAAATTTTA-AAAATAAACAAGT
60768 AAA
1 AAA
60771 GTATTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 5 0.21
24 15 0.62
25 4 0.17
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (24 bp):
AAAAAATTTTAAAAATAAACAAGT
Found at i:60851 original size:23 final size:23
Alignment explanation
Indices: 60825--60882 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
60815 AACATTCATA
60825 AAAATAAAAAATATTTTTAATTC
1 AAAATAAAAAATATTTTTAATTC
60848 AAAATAAAAAATATTTTTAATTC
1 AAAATAAAAAATATTTTTAATTC
60871 AAAATTAAAAAA
1 AAAA-TAAAAAA
60883 ATTGAAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 27 0.79
24 7 0.21
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (23 bp):
AAAATAAAAAATATTTTTAATTC
Found at i:60892 original size:23 final size:23
Alignment explanation
Indices: 60825--60892 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
60815 AACATTCATA
***
60825 AAAATAAAAAATATTTTTAATTC
1 AAAATAAAAAATATTGAAAATTC
***
60848 AAAATAAAAAATATTTTTAATTC
1 AAAATAAAAAATATTGAAAATTC
60871 AAAATTAAAAAA-ATTGAAAATT
1 AAAA-TAAAAAATATTGAAAATT
60893 TTTAAAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
23 34 0.83
24 7 0.17
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.35
Consensus pattern (23 bp):
AAAATAAAAAATATTGAAAATTC
Found at i:60997 original size:20 final size:20
Alignment explanation
Indices: 60968--61009 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
60958 ACATAGATAA
*
60968 AATTAAAAAAAAGA-GAAA-
1 AATTAAAAAAAAAAGGAAAG
60986 AATTAAAAAAAAAAGGAAAG
1 AATTAAAAAAAAAAGGAAAG
61006 AATT
1 AATT
61010 GAGAAAAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 13 0.62
19 4 0.19
20 4 0.19
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (20 bp):
AATTAAAAAAAAAAGGAAAG
Found at i:61016 original size:20 final size:20
Alignment explanation
Indices: 60972--61009 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60962 AGATAAAATT
60972 AAAAAAAAGAGAAAAATTAA
1 AAAAAAAAGAGAAAAATTAA
60992 AAAAAAAAG-GAAAGAATT
1 AAAAAAAAGAGAAA-AATT
61010 GAGAAAAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (20 bp):
AAAAAAAAGAGAAAAATTAA
Found at i:62065 original size:21 final size:21
Alignment explanation
Indices: 62023--62066 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
62013 ATATATAAAA
* *
62023 AAAATTTAAATATTTATATAT
1 AAAATTTAAAAATTAATATAT
62044 AAAATTTAATAAATTAATTATAT
1 AAAATTTAA-AAATTAA-TATAT
62067 TTAAATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 5 0.26
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AAAATTTAAAAATTAATATAT
Found at i:62108 original size:23 final size:23
Alignment explanation
Indices: 62060--62105 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
62050 TAATAAATTA
*
62060 ATTATATTTAAATATATTTTATT
1 ATTATATTTAAATATATGTTATT
62083 ATTATATTTATTAA-ATATGTTAT
1 ATTATATTTA--AATATATGTTAT
62106 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 8 0.40
25 2 0.10
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
ATTATATTTAAATATATGTTATT
Found at i:62254 original size:16 final size:16
Alignment explanation
Indices: 62233--62267 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
62223 TATGTATTTG
62233 TATTATAT-TTATAAAT
1 TATTATATATTAT-AAT
62249 TATTATATATTATAAT
1 TATTATATATTATAAT
62265 TAT
1 TAT
62268 ATTTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTATATATTATAAT
Found at i:62293 original size:27 final size:27
Alignment explanation
Indices: 62217--62297 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
62207 GGTTAAGTTA
* *
62217 AAAATA-TATGTATTTGTATTATATTT
1 AAAATATTATATATTTATATTATATTT
62243 ATAAATTATTATATA-TTATAATTATATTT
1 A-AAA-TATTATATATTTAT-ATTATATTT
62272 AAAATATTATATATTTATATTA-ATTT
1 AAAATATTATATATTTATATTATATTT
62298 TGATATTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
26 5 0.10
27 16 0.33
28 12 0.25
29 15 0.31
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (27 bp):
AAAATATTATATATTTATATTATATTT
Found at i:62344 original size:19 final size:18
Alignment explanation
Indices: 62322--62399 Score: 61
Period size: 19 Copynumber: 4.0 Consensus size: 18
62312 TTTATATAAA
62322 TTTTAATATATTTATTTAT
1 TTTTAATATATTT-TTTAT
62341 TTTT-ATCATATTTATATTAT
1 TTTTAAT-ATATTT-T-TTAT
*
62361 AATTTTATACAATATTTTTTAT
1 --TTTTA-A-TATATTTTTTAT
62383 TTTTAAT-TATTTTTTAT
1 TTTTAATATATTTTTTAT
62400 AACGTACTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
17 10 0.20
18 2 0.04
19 13 0.26
20 9 0.18
22 8 0.16
23 1 0.02
24 7 0.14
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTAATATATTTTTTAT
Found at i:62375 original size:24 final size:19
Alignment explanation
Indices: 62329--62387 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 19
62319 AAATTTTAAT
62329 ATATTTATTTATTTTTATC
1 ATATTTATTTATTTTTATC
62348 ATATTTATATTATAATTTTATAC
1 ATATTTAT-TTAT--TTTTAT-C
62371 AATATTT-TTTATTTTTA
1 -ATATTTATTTATTTTTA
62388 ATTATTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
19 8 0.23
20 9 0.26
22 10 0.29
23 2 0.06
24 6 0.17
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
ATATTTATTTATTTTTATC
Found at i:63073 original size:22 final size:20
Alignment explanation
Indices: 63030--63075 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
63020 TTAAAATTTA
63030 TTTTCTTTTTATTTTTCTAC
1 TTTTCTTTTTATTTTTCTAC
63050 TTTTCTATTCTTATCTTTTC-AC
1 TTTTCT-TT-TTAT-TTTTCTAC
63072 TTTT
1 TTTT
63076 TACTCAAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.26
21 2 0.09
22 10 0.43
23 5 0.22
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTCTTTTTATTTTTCTAC
Found at i:63499 original size:15 final size:15
Alignment explanation
Indices: 63481--63550 Score: 51
Period size: 14 Copynumber: 5.0 Consensus size: 15
63471 TTTTTAAATT
63481 AATATTATAAATATA
1 AATATTATAAATATA
*
63496 AATA-TA-ATATA-A
1 AATATTATAAATATA
* *
63508 AAAATTA-ATATATA
1 AATATTATAAATATA
*
63522 AAT-TTTTAAATATA
1 AATATTATAAATATA
**
63536 AATAAAATAAATATA
1 AATATTATAAATATA
63551 TTAAATATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
12 4 0.09
13 13 0.30
14 14 0.33
15 12 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AATATTATAAATATA
Found at i:63503 original size:20 final size:20
Alignment explanation
Indices: 63475--63544 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
63465 TTATATTTTT
63475 TAAAT-TAATATTATAAATA
1 TAAATATAATATTATAAATA
* *
63494 TAAATATAATATAAAAAAT-
1 TAAATATAATATTATAAATA
*
63513 TAATATATAA-ATTTTTAAATA
1 TAA-ATATAATA-TTATAAATA
*
63534 TAAATAAAATA
1 TAAATATAATA
63545 AATATATTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
19 9 0.22
20 27 0.68
21 4 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAATATAATATTATAAATA
Found at i:66021 original size:24 final size:27
Alignment explanation
Indices: 65948--66018 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
65938 AAACAAGCCT
* *
65948 CCATATTTGACAAAAACAAAGGA-AACCA
1 CCATTTTTGACAAACACAAA--ATAACCA
65976 CCATTTTTGACAAACACAAAATAACCA
1 CCATTTTTGACAAACACAAAATAACCA
66003 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
66019 AATGGGTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.48, C:0.24, G:0.07, T:0.21
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAATAACCA
Found at i:70592 original size:24 final size:27
Alignment explanation
Indices: 70521--70590 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
70511 AAACAAGCCT
* *
70521 CCATATTTGACAAATACAAAGGA-AACCA
1 CCATTTTTGACAAACACAAA--ATAACCA
*
70549 CCATTTTTTACAAACACAAAATAACCA
1 CCATTTTTGACAAACACAAAATAACCA
70576 CCA-TTTTGACAAACA
1 CCATTTTTGACAAACA
70591 AATGAGTGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 12 0.32
27 8 0.22
28 17 0.46
ACGTcount: A:0.47, C:0.24, G:0.06, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAATAACCA
Found at i:71308 original size:44 final size:44
Alignment explanation
Indices: 71245--71341 Score: 185
Period size: 44 Copynumber: 2.2 Consensus size: 44
71235 GGTAAATTTC
*
71245 TGATTCCTTGGAATCAGCTCTCTTTGTTATCCATTCTAAGTTTT
1 TGATTCATTGGAATCAGCTCTCTTTGTTATCCATTCTAAGTTTT
71289 TGATTCATTGGAATCAGCTCTCTTTGTTATCCATTCTAAGTTTT
1 TGATTCATTGGAATCAGCTCTCTTTGTTATCCATTCTAAGTTTT
71333 TGATTCATT
1 TGATTCATT
71342 TTTATGGTCT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (44 bp):
TGATTCATTGGAATCAGCTCTCTTTGTTATCCATTCTAAGTTTT
Found at i:73628 original size:21 final size:21
Alignment explanation
Indices: 73602--73741 Score: 64
Period size: 21 Copynumber: 6.7 Consensus size: 21
73592 GTTTTTTAAA
73602 TAATTTTATTATTATAATTTT
1 TAATTTTATTATTATAATTTT
*
73623 TAA-TTTA--AATA-AATTAGTT
1 TAATTTTATTATTATAATT--TT
* *
73642 AAATATTTATT-TAATAATTTT
1 TAAT-TTTATTATTATAATTTT
* *
73663 TTATTTTATT-TTAAAATATTT
1 TAATTTTATTATTATAAT-TTT
* *
73684 AAATTTT-TTATTTTAATTTT
1 TAATTTTATTATTATAATTTT
*
73704 AATAATTTTTAATT-TTAACAATTTT
1 --TAA-TTTT-ATTATT-ATAATTTT
73729 TAATTTT-TTATTA
1 TAATTTTATTATTA
73742 ACTATTCAAA
Statistics
Matches: 88, Mismatches: 15, Indels: 33
0.65 0.11 0.24
Matches are distributed among these distances:
17 4 0.05
18 3 0.03
19 4 0.05
20 23 0.26
21 26 0.30
22 7 0.08
23 11 0.12
24 2 0.02
25 8 0.09
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (21 bp):
TAATTTTATTATTATAATTTT
Found at i:73683 original size:30 final size:32
Alignment explanation
Indices: 73649--73716 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 32
73639 GTTAAATATT
73649 TATTTAATAATTTTTTATTTT-ATTTTAA-AA
1 TATTTAATAATTTTTTATTTTAATTTTAATAA
73679 TATTT-A-AATTTTTTATTTTAATTTTAATAA
1 TATTTAATAATTTTTTATTTTAATTTTAATAA
*
73709 TTTTTAAT
1 TATTTAAT
73717 TTTAACAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 13 0.39
29 8 0.24
30 11 0.33
31 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (32 bp):
TATTTAATAATTTTTTATTTTAATTTTAATAA
Found at i:73691 original size:28 final size:29
Alignment explanation
Indices: 73657--73719 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
73647 TTTATTTAAT
73657 AATTTTTTATTTT-ATTTTAA-AATATTTA
1 AATTTTTTATTTTAATTTTAATAAT-TTTA
*
73685 AATTTTTTATTTTAATTTTAATAATTTTT
1 AATTTTTTATTTTAATTTTAATAATTTTA
73714 AATTTT
1 AATTTT
73720 AACAATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 13 0.41
29 16 0.50
30 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (29 bp):
AATTTTTTATTTTAATTTTAATAATTTTA
Found at i:73715 original size:16 final size:16
Alignment explanation
Indices: 73694--73735 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
73684 AAATTTTTTA
*
73694 TTTTAATTTTAATAAT
1 TTTTAATTTTAACAAT
73710 TTTTAATTTTAACAAT
1 TTTTAATTTTAACAAT
73726 TTTTAATTTT
1 TTTTAATTTT
73736 TTATTAACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTAATTTTAACAAT
Found at i:73732 original size:23 final size:21
Alignment explanation
Indices: 73647--73736 Score: 71
Period size: 21 Copynumber: 4.1 Consensus size: 21
73637 TAGTTAAATA
*
73647 TTTA-TTTAATAATTTTTTA-T
1 TTTATTTTAA-AATTTTTAATT
*
73667 TTTATTTTAAAATATTTAAATTT
1 TTTATTTTAAAAT-TTTTAA-TT
73690 TTTATTTT--AATTTTAATAATT
1 TTTATTTTAAAATTTT--TAATT
73711 TTTAATTTTAACAATTTTTAATT
1 TTT-ATTTTAA-AATTTTTAATT
73734 TTT
1 TTT
73737 TATTAACTAT
Statistics
Matches: 57, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
20 10 0.18
21 17 0.30
22 7 0.12
23 17 0.30
25 6 0.11
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTATTTTAAAATTTTTAATT
Found at i:74859 original size:16 final size:16
Alignment explanation
Indices: 74818--74859 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
74808 TGTATTAGTA
74818 TTATATTCATATTATTT
1 TTATATT-ATATTATTT
*
74835 TTATGTTATATTATATT
1 TTATATTATATTAT-TT
74852 TTA-ATTAT
1 TTATATTAT
74860 TTTTTCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (16 bp):
TTATATTATATTATTT
Found at i:75450 original size:2 final size:2
Alignment explanation
Indices: 75445--75498 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
75435 TATTTGTGTG
*
75445 TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
75487 TA TA TA TG TA TA
1 TA TA TA TA TA TA
75499 CACATATTGT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:77121 original size:56 final size:56
Alignment explanation
Indices: 77035--77144 Score: 220
Period size: 56 Copynumber: 2.0 Consensus size: 56
77025 TCTTTTCCTG
77035 ATCTGATCTGTTCTTCATTCTTTTTTTTGCAGATCCAAAAACAGATAAACATATTC
1 ATCTGATCTGTTCTTCATTCTTTTTTTTGCAGATCCAAAAACAGATAAACATATTC
77091 ATCTGATCTGTTCTTCATTCTTTTTTTTGCAGATCCAAAAACAGATAAACATAT
1 ATCTGATCTGTTCTTCATTCTTTTTTTTGCAGATCCAAAAACAGATAAACATAT
77145 ATCACAAGCC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (56 bp):
ATCTGATCTGTTCTTCATTCTTTTTTTTGCAGATCCAAAAACAGATAAACATATTC
Found at i:80115 original size:42 final size:42
Alignment explanation
Indices: 80068--80156 Score: 108
Period size: 43 Copynumber: 2.1 Consensus size: 42
80058 GTTGCGTTAT
* *
80068 AATTCTTTCGTA-TAGGATTAAAAGATCAATTTGCCATTGCCA
1 AATTCTTTC-TAGTAGGACTAAAAGATCAATTTGCCACTGCCA
** *
80110 AATTCTTTCTAGGTAGGACTAGTAGATCAATTTGCTACTGCCA
1 AATTCTTTCTA-GTAGGACTAAAAGATCAATTTGCCACTGCCA
80153 AATT
1 AATT
80157 ATTACAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
41 2 0.05
42 9 0.22
43 29 0.73
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (42 bp):
AATTCTTTCTAGTAGGACTAAAAGATCAATTTGCCACTGCCA
Found at i:81216 original size:20 final size:21
Alignment explanation
Indices: 81188--81227 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
81178 TTTTATAAGT
81188 TTTTAAAGC-TATATCAATAC
1 TTTTAAAGCATATATCAATAC
* *
81208 TTTTGAAGCATGTATCAATA
1 TTTTAAAGCATATATCAATA
81228 ATTCCCTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (21 bp):
TTTTAAAGCATATATCAATAC
Found at i:81470 original size:10 final size:11
Alignment explanation
Indices: 81443--81469 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
81433 ACCTCAATGC
81443 AAAAAAGAATA
1 AAAAAAGAATA
81454 AAAAAAGAATA
1 AAAAAAGAATA
81465 AAAAA
1 AAAAA
81470 GCTCATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAAAAGAATA
Found at i:83593 original size:30 final size:31
Alignment explanation
Indices: 83557--83621 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
83547 TTCCAAAATG
*
83557 TTTTCATGTATATTATGGAGCATTT-AG-TAA
1 TTTTCATATATATTA-GGAGCATTTAAGTTAA
* *
83587 TTTTCATATATTTTAGGATCATTTAAGTTAA
1 TTTTCATATATATTAGGAGCATTTAAGTTAA
83618 TTTT
1 TTTT
83622 TTGTAATCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 8 0.27
30 15 0.50
31 7 0.23
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.52
Consensus pattern (31 bp):
TTTTCATATATATTAGGAGCATTTAAGTTAA
Found at i:83745 original size:58 final size:57
Alignment explanation
Indices: 83577--83768 Score: 170
Period size: 58 Copynumber: 3.3 Consensus size: 57
83567 TATTATGGAG
* *
83577 CATTTAGTAATTTTCATATATTTTAGGATCATTTA-AGTTAATTTTTTGTAATCTACGGA
1 CATTTAGTAATTTTCAT-TATTTTAGGGTCATTTAGA-TT-ATTTTATGTAATCTACGGA
* ** * * * ** * *
83636 CTGTTTAGCGATTTTCATGAATTTTAAGGTCATTTAGGTTATTTTGCGTAATTTAGGGA
1 C-ATTTAGTAATTTTCAT-TATTTTAGGGTCATTTAGATTATTTTATGTAATCTACGGA
* * *
83695 CATTTAGTAATTCTCATTCATTTTAGGGTCATTTAGATTATTTTATGTAATCTAAAGGC
1 CATTTAGTAATTTTCATT-ATTTTAGGGTCATTTAGATTATTTTATGTAATCT-ACGGA
*
83754 CATTTAGTATTTTTC
1 CATTTAGTAATTTTC
83769 TAATGCATGG
Statistics
Matches: 103, Mismatches: 26, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
58 41 0.40
59 33 0.32
60 29 0.28
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.48
Consensus pattern (57 bp):
CATTTAGTAATTTTCATTATTTTAGGGTCATTTAGATTATTTTATGTAATCTACGGA
Found at i:84058 original size:50 final size:50
Alignment explanation
Indices: 83979--84209 Score: 230
Period size: 49 Copynumber: 4.8 Consensus size: 50
83969 ACTATCAAAT
** *
83979 CCAACCAAAATTGAGTCTTTTAGGATTAGTTTTGTACTTTTCATTTAAAA
1 CCAACCAAAATCAAGTCTTTTAGGGTTAGTTTTGTACTTTTCATTTAAAA
* * * *
84029 CCGACCAAAATCAAGTCTTATAGGGTTAGTTTTGT--TGTTCATATCAAAA
1 CCAACCAAAATCAAGTCTTTTAGGGTTAGTTTTGTACTTTTCAT-TTAAAA
* * * *
84078 CCAATCAAAATCAAGTCTTTTAGTGTTGGCTTTGTA-----CATTT-AAA
1 CCAACCAAAATCAAGTCTTTTAGGGTTAGTTTTGTACTTTTCATTTAAAA
* * * *
84122 CCAACCAAAATTAGGTCTTTTAGGGTTAGTATTGTACTTTTC-GTTAAAA
1 CCAACCAAAATCAAGTCTTTTAGGGTTAGTTTTGTACTTTTCATTTAAAA
* *
84171 CCAACTAAAATCAAGTCTTTTA-GGTTAGTCTTGTACTTT
1 CCAACCAAAATCAAGTCTTTTAGGGTTAGTTTTGTACTTT
84210 CGTTAAAATC
Statistics
Matches: 147, Mismatches: 26, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
44 32 0.22
45 1 0.01
46 3 0.02
48 24 0.16
49 57 0.39
50 30 0.20
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (50 bp):
CCAACCAAAATCAAGTCTTTTAGGGTTAGTTTTGTACTTTTCATTTAAAA
Found at i:84112 original size:99 final size:95
Alignment explanation
Indices: 83971--84210 Score: 233
Period size: 93 Copynumber: 2.5 Consensus size: 95
83961 TTGTACTTAC
* ** *
83971 TATCAAATCCAACCAAAATTGAGTCTTTTAGGATTAGTTTTGTACTTTTCATTTAAAACCGACCA
1 TATCAAAACCAA-CAAAATCAAGTCTTTTAGG-TTAG-TTTGTAC-TTTCATTT-AAACCAACCA
*
84036 AAATCAAGTCTTATAGGGTTAGTTTTGT-TGTTCA
61 AAATCAAGTCTTATAGGGTTAGTATTGTATGTTCA
*
84070 TATCAAAACCAATCAAAATCAAGTCTTTTAGTGTTGGCTTTGTA----CATTTAAACCAACCAAA
1 TATCAAAACCAA-CAAAATCAAGTCTTTTAG-GTTAG-TTTGTACTTTCATTTAAACCAACCAAA
* * * * *
84131 ATTAGGTCTTTTAGGGTTAGTATTGTACTTTTCG
63 ATCAAGTCTTATAGGGTTAGTATTGTA-TGTTCA
84165 T-T-AAAACCAACTAAAATCAAGTCTTTTAGGTTAGTCTTGTACTTTC
1 TATCAAAACCAAC-AAAATCAAGTCTTTTAGGTTAGT-TTGTACTTTC
84211 GTTAAAATCA
Statistics
Matches: 118, Mismatches: 14, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
91 1 0.01
92 10 0.08
93 58 0.49
94 6 0.05
95 5 0.04
96 1 0.01
99 36 0.31
100 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (95 bp):
TATCAAAACCAACAAAATCAAGTCTTTTAGGTTAGTTTGTACTTTCATTTAAACCAACCAAAATC
AAGTCTTATAGGGTTAGTATTGTATGTTCA
Found at i:87350 original size:12 final size:13
Alignment explanation
Indices: 87333--87363 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
87323 TTAGGCTACC
87333 TTTTTTTCT-TCT
1 TTTTTTTCTCTCT
87345 TTTTTTTCTCTCT
1 TTTTTTTCTCTCT
87358 TTTTTT
1 TTTTTT
87364 CTTTCCTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTTCTCTCT
Found at i:87364 original size:12 final size:11
Alignment explanation
Indices: 87332--87366 Score: 52
Period size: 12 Copynumber: 3.0 Consensus size: 11
87322 CTTAGGCTAC
87332 CTTTTTTTCTT
1 CTTTTTTTCTT
87343 CTTTTTTTTCTCT
1 C-TTTTTTTCT-T
87356 CTTTTTTTCTT
1 CTTTTTTTCTT
87367 TCCTTCATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 2 0.09
12 18 0.82
13 2 0.09
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
CTTTTTTTCTT
Found at i:87736 original size:33 final size:33
Alignment explanation
Indices: 87699--87765 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
87689 CACATGCAGA
*
87699 TGTATCAATACA-AGTTGTAATGTATCGATACAT
1 TGTATCAATACACA-TTGCAATGTATCGATACAT
*
87732 TGTATCGATACACATTGCAATGTATCGATACAT
1 TGTATCAATACACATTGCAATGTATCGATACAT
87765 T
1 T
87766 ATGGAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (33 bp):
TGTATCAATACACATTGCAATGTATCGATACAT
Found at i:87748 original size:15 final size:13
Alignment explanation
Indices: 87719--87743 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87709 CAAGTTGTAA
87719 TGTATCGATACAT
1 TGTATCGATACAT
87732 TGTATCGATACA
1 TGTATCGATACA
87744 CATTGCAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:88453 original size:14 final size:14
Alignment explanation
Indices: 88434--88464 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
88424 TTCACTGTTC
88434 ATCACTATTCATGT
1 ATCACTATTCATGT
88448 ATCACTATTCATGT
1 ATCACTATTCATGT
88462 ATC
1 ATC
88465 GATAAAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (14 bp):
ATCACTATTCATGT
Found at i:88510 original size:13 final size:13
Alignment explanation
Indices: 88492--88531 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
88482 TCACTATTCA
88492 TGTATCGATACAT
1 TGTATCGATACAT
*
88505 TGTATCGATACAG
1 TGTATCGATACAT
88518 TGTATCGATACAT
1 TGTATCGATACAT
88531 T
1 T
88532 ATGAATAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:89039 original size:32 final size:34
Alignment explanation
Indices: 88998--89061 Score: 105
Period size: 32 Copynumber: 1.9 Consensus size: 34
88988 CAAGTGATTA
88998 AGAGGTTCTATCTTAG-CTTTG-AAAGATAGTGT
1 AGAGGTTCTATCTTAGCCTTTGAAAAGATAGTGT
89030 AGAGGTTCTATCTTAGCCTTTGTAAAAGATAG
1 AGAGGTTCTATCTTAGCCTTTG-AAAAGATAG
89062 AGGTGTAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 16 0.55
33 5 0.17
35 8 0.28
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (34 bp):
AGAGGTTCTATCTTAGCCTTTGAAAAGATAGTGT
Found at i:89710 original size:34 final size:34
Alignment explanation
Indices: 89664--89757 Score: 118
Period size: 34 Copynumber: 2.8 Consensus size: 34
89654 AAAGTGATTA
* *
89664 AGAGGTTTTATCTAAGCCTTCGAAAAGATAGTGT
1 AGAGGTTCTATCTAAGCCTTCGAAAAGATAATGT
*
89698 AGAGGTTCTATCTTAGCCTTC-AGAAAGATAATGT
1 AGAGGTTCTATCTAAGCCTTCGA-AAAGATAATGT
* * *
89732 TGAGATTCTATCTAAGCCTTTGAAAA
1 AGAGGTTCTATCTAAGCCTTCGAAAA
89758 AAATAAAGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
33 1 0.02
34 49 0.96
35 1 0.02
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (34 bp):
AGAGGTTCTATCTAAGCCTTCGAAAAGATAATGT
Found at i:92989 original size:59 final size:59
Alignment explanation
Indices: 92803--92975 Score: 328
Period size: 59 Copynumber: 2.9 Consensus size: 59
92793 ATAAAAACAA
* *
92803 AAAATAAAAGGATAAAGTCCAGAAAATATACCAACACAAGCAGCTATGTTGATTTACTG
1 AAAATAAAAGGATAAAATCCAAAAAATATACCAACACAAGCAGCTATGTTGATTTACTG
92862 AAAATAAAAGGATAAAATCCAAAAAATATACCAACACAAGCAGCTATGTTGATTTACTG
1 AAAATAAAAGGATAAAATCCAAAAAATATACCAACACAAGCAGCTATGTTGATTTACTG
92921 AAAATAAAAGGATAAAATCCAAAAAATATACCAACACAAGCAGCTATGTTGATTT
1 AAAATAAAAGGATAAAATCCAAAAAATATACCAACACAAGCAGCTATGTTGATTT
92976 GCTGGTTTGA
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 112 1.00
ACGTcount: A:0.50, C:0.15, G:0.13, T:0.22
Consensus pattern (59 bp):
AAAATAAAAGGATAAAATCCAAAAAATATACCAACACAAGCAGCTATGTTGATTTACTG
Found at i:93812 original size:59 final size:59
Alignment explanation
Indices: 93685--93798 Score: 210
Period size: 59 Copynumber: 1.9 Consensus size: 59
93675 ATAAAAACAA
* *
93685 AAAATAAAAGGATAAAGTCCAGAAAATATACCAACACAAGCAGCTATGTTGATTTACTG
1 AAAATAAAAGGATAAAATCCAAAAAATATACCAACACAAGCAGCTATGTTGATTTACTG
93744 AAAATAAAAGGATAAAATCCAAAAAATATACCAACACAAGCAGCTATGTTGATTT
1 AAAATAAAAGGATAAAATCCAAAAAATATACCAACACAAGCAGCTATGTTGATTT
93799 GCTGGTTTGA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.50, C:0.15, G:0.13, T:0.22
Consensus pattern (59 bp):
AAAATAAAAGGATAAAATCCAAAAAATATACCAACACAAGCAGCTATGTTGATTTACTG
Found at i:94494 original size:20 final size:19
Alignment explanation
Indices: 94417--94494 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 19
94407 ATTTGCCTGC
* *
94417 ATGTATCGCTACATTGAATA
1 ATGTATCGATACATT-TATA
* *
94437 ATGTATCAATACAATTATAAA
1 ATGTATCGATAC-ATT-TATA
94458 CATGTATCGATACATTTAGTA
1 -ATGTATCGATACATTTA-TA
94479 ATGTATCGATACATTT
1 ATGTATCGATACATTT
94495 CCTTAGCAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
20 28 0.58
21 9 0.19
22 11 0.23
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (19 bp):
ATGTATCGATACATTTATA
Found at i:99969 original size:21 final size:20
Alignment explanation
Indices: 99948--99985 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
99938 TTGTATTGAT
99948 ATAAAT-AGTGAATGTATCG
1 ATAAATGAGTGAATGTATCG
*
99967 ATACATGAGTGAATGTATC
1 ATAAATGAGTGAATGTATC
99986 AATACATGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (20 bp):
ATAAATGAGTGAATGTATCG
Found at i:99979 original size:20 final size:20
Alignment explanation
Indices: 99954--99993 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
99944 TGATATAAAT
*
99954 AGTGAATGTATCGATACATG
1 AGTGAATGTATCAATACATG
99974 AGTGAATGTATCAATACATG
1 AGTGAATGTATCAATACATG
99994 TCTGAAACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.30
Consensus pattern (20 bp):
AGTGAATGTATCAATACATG
Found at i:99999 original size:20 final size:20
Alignment explanation
Indices: 99956--99999 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
99946 ATATAAATAG
* *
99956 TGAATGTATCGATACATGAG
1 TGAATGTATCAATACATGAC
*
99976 TGAATGTATCAATACATGTC
1 TGAATGTATCAATACATGAC
99996 TGAA
1 TGAA
100000 ACGTATTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.32
Consensus pattern (20 bp):
TGAATGTATCAATACATGAC
Found at i:102602 original size:79 final size:79
Alignment explanation
Indices: 102519--102989 Score: 345
Period size: 80 Copynumber: 5.9 Consensus size: 79
102509 GTCAACCCCG
* *
102519 TTTTTATTTTCAAAATATCAATTTTTCACCTTCGGAGATACTCTAACCCCATCATTTTCGAAAGG
1 TTTTTATTTTCAAAATATCAATTTTTCACCATCGGAGATACTCTAACCCCATCATTTTCGAAGGG
102584 ATACTCCAACCCTA
66 ATACTCCAACCCTA
* ** ** * * * *
102598 TTTTTATTTTTAAAATATTGATTTTTCACCATCTAAGATACCCCAACCCTATCATTTTCGAGGGG
1 TTTTTATTTTCAAAATATCAATTTTTCACCATCGGAGATACTCTAACCCCATCATTTTCGAAGGG
** *
102663 ATACTTTAACCCCA
66 ATACTCCAACCCTA
* * * * *
102677 TTTTTATTTTTAAAATATCGAATTTTTCACCATCGGAGATACTTTAATCTCATCATTTTCGATGG
1 TTTTTATTTTCAAAATATC-AATTTTTCACCATCGGAGATACTCTAACCCCATCATTTTCGAAGG
* *
102742 GATACTCCAACCTTTG
65 GATACTCCAACC-CTA
* * * *
102758 TTTTTA-CTTCTAAAATATCAAATTTTTCACTATCATG-GACACTCTAACCCCATCA-TTTCTG-
1 TTTTTATTTTC-AAAATATC-AATTTTTCACCATC-GGAGATACTCTAACCCCATCATTTTC-GA
102819 AGGAGATACTCCAATCCC-A
62 AGG-GATACTCCAA-CCCTA
* * * *** *
102838 TTTTTACTTCCAAAATATCAAAATTTTT-ACCATC-GAGGATACTCCAATTTCATCA-TTTCCAA
1 TTTTTATTTTCAAAATATC--AATTTTTCACCATCGGA-GATACTCTAACCCCATCATTTTCGAA
*
102900 GGGGATACTCCAACCCCA
63 -GGGATACTCCAACCCTA
* * * * * * * * *
102918 TCTCTACTTCCAAAATA-CTAAATTTTAATCA-CGGGGATACTCTAACCCCACCATCTTT--AAG
1 TTTTTATTTTCAAAATATC-AATTTTTCACCATCGGAGATACTCTAACCCCATCAT-TTTCGAA-
102979 GGGATACTCCA
63 GGGATACTCCA
102990 CTTTCGTTTT
Statistics
Matches: 312, Mismatches: 62, Indels: 37
0.76 0.15 0.09
Matches are distributed among these distances:
78 35 0.11
79 91 0.29
80 119 0.38
81 64 0.21
82 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.36
Consensus pattern (79 bp):
TTTTTATTTTCAAAATATCAATTTTTCACCATCGGAGATACTCTAACCCCATCATTTTCGAAGGG
ATACTCCAACCCTA
Found at i:102744 original size:80 final size:79
Alignment explanation
Indices: 102511--102918 Score: 346
Period size: 80 Copynumber: 5.1 Consensus size: 79
102501 ATGGGTATGT
* * *
102511 CAACCCCGTTTTTATTTTCAAAATATC-AATTTTTCACCTTCGGAGATACTCTAACCCCATCATT
1 CAACCCCATTTTTATTTTTAAAATATCGAATTTTTCACCATCGGAGATACTCTAA-CCCATCATT
*
102575 TTCGAAAGGATACTC
65 TTCGAAGGGATACTC
* * ** * *
102590 CAACCCTATTTTTATTTTTAAAATATTG-ATTTTTCACCATCTAAGATACCCCAACCCTATCATT
1 CAACCCCATTTTTATTTTTAAAATATCGAATTTTTCACCATCGGAGATACTCTAACCC-ATCATT
* *
102654 TTCGAGGGGATACTT
65 TTCGAAGGGATACTC
* * *
102669 TAACCCCATTTTTATTTTTAAAATATCGAATTTTTCACCATCGGAGATACTTTAATCTCATCATT
1 CAACCCCATTTTTATTTTTAAAATATCGAATTTTTCACCATCGGAGATACTCTAA-CCCATCATT
*
102734 TTCGATGGGATACTC
65 TTCGAAGGGATACTC
*** * * * * * *
102749 CAACCTTTGTTTTTACTTCTAAAATATCAAATTTTTCACTATCATG-GACACTCTAACCCCATCA
1 CAACC-CCATTTTTATTTTTAAAATATCGAATTTTTCACCATC-GGAGATACTCTAA-CCCATCA
102813 -TTTCTG-AGGAGATACTC
63 TTTTC-GAAGG-GATACTC
* * ** * * **
102830 CAATCCCATTTTTACTTCCAAAATATCAAAATTTTT-ACCATC-GAGGATACTCCAATTTCATCA
1 CAACCCCATTTTTATTTTTAAAATATC-GAATTTTTCACCATCGGA-GATACTCTAA-CCCATCA
*
102893 -TTTCCAAGGGGATACTC
63 TTTTCGAA-GGGATACTC
102910 CAACCCCAT
1 CAACCCCAT
102919 CTCTACTTCC
Statistics
Matches: 266, Mismatches: 50, Indels: 25
0.78 0.15 0.07
Matches are distributed among these distances:
78 4 0.02
79 87 0.33
80 106 0.40
81 68 0.26
82 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.37
Consensus pattern (79 bp):
CAACCCCATTTTTATTTTTAAAATATCGAATTTTTCACCATCGGAGATACTCTAACCCATCATTT
TCGAAGGGATACTC
Found at i:102872 original size:161 final size:158
Alignment explanation
Indices: 102511--102943 Score: 444
Period size: 161 Copynumber: 2.7 Consensus size: 158
102501 ATGGGTATGT
* * * *
102511 CAACCCCGTTTTTATTTTCAAAATATCAATTTTTCACCTTCGGAGATACTCTAACCCCATCATTT
1 CAACCCCATTTTTATTTTCAAAATATCAATTTTTCACCATCGGAGATACTCTAATCTCATCATTT
* * * ** *
102576 TCGAAAGGATACTCCAACCCTATTTTTATTTTTAAAATATTGATTTTTCACCATCTAAGATACCC
66 TCGAAGGGATACTCCAACCCTATTTTTACTTCTAAAATATAAATTTTTCACCATCTAAGACACCC
* * *
102641 CAACCCTATCATTTTCGAGGGGATACTT
131 CAACCCCATCATTTTCGAGGAGATACTC
* * *
102669 TAACCCCATTTTTATTTTTAAAATATCGAATTTTTCACCATCGGAGATACTTTAATCTCATCATT
1 CAACCCCATTTTTATTTTCAAAATATC-AATTTTTCACCATCGGAGATACTCTAATCTCATCATT
* * * * *
102734 TTCGATGGGATACTCCAACCTTTGTTTTTACTTCTAAAATATCAAATTTTTCACTATC-ATGGAC
65 TTCGAAGGGATACTCCAACC-CTATTTTTACTTCTAAAATAT-AAATTTTTCACCATCTA-AGAC
* *
102798 ACTCTAACCCCATCA-TTTCTGAGGAGATACTC
127 ACCCCAACCCCATCATTTTC-GAGGAGATACTC
* * * * *
102830 CAATCCCATTTTTACTTCCAAAATATCAAAATTTTT-ACCATC-GAGGATACTCCAATTTCATCA
1 CAACCCCATTTTTATTTTCAAAATATC--AATTTTTCACCATCGGA-GATACTCTAATCTCATCA
* * * * *
102893 -TTTCCAAGGGGATACTCCAACCCCATCTCTACTTCCAAAATACTAAATTTT
63 TTTTCGAA-GGGATACTCCAACCCTATTTTTACTTCTAAAATA-TAAATTTT
102944 AATCACGGGG
Statistics
Matches: 226, Mismatches: 40, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
158 24 0.11
159 51 0.23
160 50 0.22
161 94 0.42
162 7 0.03
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.37
Consensus pattern (158 bp):
CAACCCCATTTTTATTTTCAAAATATCAATTTTTCACCATCGGAGATACTCTAATCTCATCATTT
TCGAAGGGATACTCCAACCCTATTTTTACTTCTAAAATATAAATTTTTCACCATCTAAGACACCC
CAACCCCATCATTTTCGAGGAGATACTC
Found at i:104015 original size:42 final size:42
Alignment explanation
Indices: 103952--104036 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
103942 TGGACTCAAA
* * *
103952 GTATCGATACTACGCATAATGTATCAATACATGAACAGTGAT
1 GTATCGATACAACGCACAATGTATCAATACATGAACAATGAT
* *
103994 GTATCGATACAACTCACAATGTATCGATACATGAACAATGAT
1 GTATCGATACAACGCACAATGTATCAATACATGAACAATGAT
104036 G
1 G
104037 AATAGTAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (42 bp):
GTATCGATACAACGCACAATGTATCAATACATGAACAATGAT
Found at i:114889 original size:2 final size:2
Alignment explanation
Indices: 114882--114911 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
114872 AGGGACACGC
114882 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
114912 ATATATATAT
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:125202 original size:39 final size:39
Alignment explanation
Indices: 125158--125236 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
125148 AAAAAAATTA
125158 TATTTTTTATTTAAATTTAAATCAAATAAAATTTAAAAG
1 TATTTTTTATTTAAATTTAAATCAAATAAAATTTAAAAG
*
125197 TATTTTTTATTTAAATTTAAATCAAGTAAAATTTAAAAG
1 TATTTTTTATTTAAATTTAAATCAAATAAAATTTAAAAG
125236 T
1 T
125237 TTTAATTTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (39 bp):
TATTTTTTATTTAAATTTAAATCAAATAAAATTTAAAAG
Found at i:125401 original size:22 final size:23
Alignment explanation
Indices: 125346--125399 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
125336 CTATAATAAC
125346 TTAAATTTTAAAAAAATTATGTT
1 TTAAATTTTAAAAAAATTATGTT
125369 TTAAATTTTAAAAAAATTATGTT
1 TTAAATTTTAAAAAAATTATGTT
*
125392 TAAAATTT
1 TTAAATTT
125400 AATCTAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (23 bp):
TTAAATTTTAAAAAAATTATGTT
Found at i:132050 original size:13 final size:13
Alignment explanation
Indices: 132032--132057 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
132022 ACACCAAAGT
132032 ATGTATCGATACA
1 ATGTATCGATACA
132045 ATGTATCGATACA
1 ATGTATCGATACA
132058 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:132055 original size:33 final size:33
Alignment explanation
Indices: 132013--132077 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
132003 GTAGACAAAT
* *
132013 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
132046 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
132078 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:134314 original size:21 final size:22
Alignment explanation
Indices: 134276--134325 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
134266 TTGCAAGTTG
* *
134276 AAATAAAGAAGTTGGCTAATAA
1 AAATAAAGAAGTTAGCTAAGAA
*
134298 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAGAA
134319 AAATAAA
1 AAATAAA
134326 AACTTGCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.58, C:0.04, G:0.16, T:0.22
Consensus pattern (22 bp):
AAATAAAGAAGTTAGCTAAGAA
Found at i:138253 original size:13 final size:13
Alignment explanation
Indices: 138235--138272 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
138225 CATTTTTCTT
138235 TGTATCGATACAA
1 TGTATCGATACAA
*
138248 TGTATCGATACAC
1 TGTATCGATACAA
138261 TGTATCGATACA
1 TGTATCGATACA
138273 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:138427 original size:20 final size:20
Alignment explanation
Indices: 138384--138429 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
138374 AAATCTTTTG
138384 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
138405 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
138425 CAAAA
1 CAAAA
138430 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:140162 original size:39 final size:40
Alignment explanation
Indices: 140109--140199 Score: 105
Period size: 39 Copynumber: 2.3 Consensus size: 40
140099 GGAGATTTTT
* * *
140109 TTTAGTAAAAGGGGAGAATGCATAAATTTGCTAAAATTA-
1 TTTAGTTAAGGGGGAGAATGCACAAATTTGCTAAAATTAC
* * *
140148 TCTTA-TTAAGGGGGAGAATGTACGAATTTGTTAAAATTAC
1 T-TTAGTTAAGGGGGAGAATGCACAAATTTGCTAAAATTAC
140188 TTTAGTTAAGGG
1 TTTAGTTAAGGG
140200 AGAAAGAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
39 32 0.74
40 11 0.26
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.34
Consensus pattern (40 bp):
TTTAGTTAAGGGGGAGAATGCACAAATTTGCTAAAATTAC
Found at i:140868 original size:20 final size:20
Alignment explanation
Indices: 140823--140874 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
140813 GTAGCCAAAC
**
140823 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
140843 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
140862 TTGTATCGATACA
1 TTGTATCGATACA
140875 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:142543 original size:6 final size:7
Alignment explanation
Indices: 142527--142551 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
142517 TACAAATTAA
142527 TTTTGAT
1 TTTTGAT
142534 TTTTGAT
1 TTTTGAT
142541 TTTTGAT
1 TTTTGAT
142548 TTTT
1 TTTT
142552 CTTTTTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (7 bp):
TTTTGAT
Found at i:144205 original size:20 final size:21
Alignment explanation
Indices: 144158--144210 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
144148 GCCAATGACT
**
144158 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
144179 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
144199 TGTATCGATACA
1 TGTATCGATACA
144211 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:144492 original size:21 final size:23
Alignment explanation
Indices: 144456--144501 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
144446 TTAATTGAAT
*
144456 AAAACATATTTTTGGTATT-TTC
1 AAAACATATTTCTGGTATTATTC
*
144478 AAAACA-ATTTCTGGTTTTATTC
1 AAAACATATTTCTGGTATTATTC
144500 AA
1 AA
144502 TCCTTTGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.46
Consensus pattern (23 bp):
AAAACATATTTCTGGTATTATTC
Found at i:146672 original size:13 final size:13
Alignment explanation
Indices: 146654--146692 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
146644 ATAATCCCCT
146654 TGTATCGATACAG
1 TGTATCGATACAG
*
146667 TGTATCGATACAA
1 TGTATCGATACAG
146680 TGTATCGATACAG
1 TGTATCGATACAG
146693 AGAATGCTAT
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:0.15, G:0.21, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:150736 original size:24 final size:23
Alignment explanation
Indices: 150709--150755 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
150699 CCACTCAATC
150709 GGAAAACCCACTTTGGTTTTTTTT
1 GGAAAACCC-CTTTGGTTTTTTTT
* **
150733 GGAAAGCCCCTTTTTTTTTTTTT
1 GGAAAACCCCTTTGGTTTTTTTT
150756 TTTCGATCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.51
Consensus pattern (23 bp):
GGAAAACCCCTTTGGTTTTTTTT
Found at i:154055 original size:275 final size:275
Alignment explanation
Indices: 153546--154070 Score: 592
Period size: 274 Copynumber: 1.9 Consensus size: 275
153536 CTATCAAAAC
* ** *
153546 AGGTATTAAGACAAGTTTATTTTATTATTATTTTTAATAAAGTTAAAATTTTTTAAAAATCAAGA
1 AGGTATTAAGACAAGTTTATTTTATTATTAGTTTTAATAAAGCCAAAATTTTTGAAAAATCAAGA
* * ** ** * *
153611 CAATGTCCCTAAATCAGAATAATTCGTGAAATGTTTCTTAGCTTATAGAAAAAGTTTCATAGATT
66 CAATGTCCCTAAATCAAAATAATACGTGAAATGACTCCCAACATATAGAAAAAGTTTCATAGATT
**** * *
153676 ATTCTAATGGTGAGACATATTTTTCAAAATGAGTAAAATTAAGATTTTTCAAATTTCAAGAAATA
131 ATTCTAATAACAAGACATATTTCTCAAAATGAGTAAAATCAAGATTTTTCAAATTTCAAGAAATA
* * *
153741 AAACTTCATATTTCTTTAACTTCATCCGAGGGAACAAATGATATTTTGATTTTGAAAAATATTAT
196 AAACTTCATATTTCTTCAACTTCATCAGAGGGAACAAATGACATTTTGATTTTGAAAAATATTAT
153806 AATTTTCCCAAAATT
261 AATTTTCCCAAAATT
* * *
153821 AGGTCTTAAGACAAGTTTATTTTATTATTAGTTTTAATAAAGCCAAAA-TTTTGAAAAATTAAGG
1 AGGTATTAAGACAAGTTTATTTTATTATTAGTTTTAATAAAGCCAAAATTTTTGAAAAATCAAGA
* * * * * * * *
153885 CAATGTCCTTGAGTTAAAATAGTACGTGAAATGACTCCCAACATATA-TAAAGGATTTCGTAGAT
66 CAATGTCCCTAAATCAAAATAATACGTGAAATGACTCCCAACATATAGAAAAAG-TTTCATAGAT
* * * * *
153949 TATTTTAATAACAAGACATCTTTCTCAAAACT-AGTAAAATCGAGATTTTTCCAATTTCATGAAA
130 TATTCTAATAACAAGACATATTTCTCAAAA-TGAGTAAAATCAAGATTTTTCAAATTTCAAGAAA
* ** * *
154013 -CAAACTTCATATTT-TTCCGGCTTCATCTAGTGAGGTACAAATGACATTTTGATTTTGA
194 TAAAACTTCATATTTCTT-CAACTTCATC-AGAG-GGAACAAATGACATTTTGATTTTGA
154071 GAATGTTAAA
Statistics
Matches: 203, Mismatches: 42, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
272 2 0.01
273 24 0.12
274 109 0.54
275 68 0.33
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (275 bp):
AGGTATTAAGACAAGTTTATTTTATTATTAGTTTTAATAAAGCCAAAATTTTTGAAAAATCAAGA
CAATGTCCCTAAATCAAAATAATACGTGAAATGACTCCCAACATATAGAAAAAGTTTCATAGATT
ATTCTAATAACAAGACATATTTCTCAAAATGAGTAAAATCAAGATTTTTCAAATTTCAAGAAATA
AAACTTCATATTTCTTCAACTTCATCAGAGGGAACAAATGACATTTTGATTTTGAAAAATATTAT
AATTTTCCCAAAATT
Done.