Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 95 of 106
Found at i:36119082 original size:31 final size:32
Alignment explanation
Indices: 36119015--36119083 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
36119005 CATCATAGTT
*
36119015 GTGCCACGTGGCACTGCAACGTAATCACATAG
1 GTGCCACGTGGCACTGCAACATAATCACATAG
* * **
36119047 GTGCCACGTGGCA-TGCCACATCATCATGTAG
1 GTGCCACGTGGCACTGCAACATAATCACATAG
36119078 GTGCCA
1 GTGCCA
36119084 TGTCAGCTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 19 0.59
32 13 0.41
ACGTcount: A:0.25, C:0.29, G:0.26, T:0.20
Consensus pattern (32 bp):
GTGCCACGTGGCACTGCAACATAATCACATAG
Found at i:36132595 original size:16 final size:15
Alignment explanation
Indices: 36132570--36132610 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
36132560 GCTTGAAAGC
*
36132570 AAAGAGAGAAAGGAAG
1 AAAGAAAGAAAGG-AG
36132586 AAAGAAAGAAAGGAG
1 AAAGAAAGAAAGGAG
36132601 AAA-AAAGAAA
1 AAAGAAAGAAA
36132611 AAGACAACGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 7 0.29
15 5 0.21
16 12 0.50
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (15 bp):
AAAGAAAGAAAGGAG
Found at i:36135654 original size:9 final size:8
Alignment explanation
Indices: 36135641--36135675 Score: 52
Period size: 9 Copynumber: 4.1 Consensus size: 8
36135631 TTGTATTTAT
36135641 TATTATTA
1 TATTATTA
36135649 TCATTATTA
1 T-ATTATTA
36135658 TATTATTA
1 TATTATTA
36135666 TATTTATTA
1 TA-TTATTA
36135675 T
1 T
36135676 TTCATTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 10 0.40
9 15 0.60
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (8 bp):
TATTATTA
Found at i:36135682 original size:17 final size:16
Alignment explanation
Indices: 36135634--36135683 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
36135624 TTCCCTCTTG
36135634 TATTTATTA-TTATTA
1 TATTTATTATTTATTA
36135649 TCA-TTATTATATTATTA
1 T-ATTTATTAT-TTATTA
36135666 TATTTATTATTTCATTA
1 TATTTATTATTT-ATTA
36135683 T
1 T
36135684 TTTGTTGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.23
16 4 0.13
17 19 0.63
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTTATTATTTATTA
Found at i:36135682 original size:20 final size:19
Alignment explanation
Indices: 36135634--36135684 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
36135624 TTCCCTCTTG
36135634 TATTTATTATTATTATCAT
1 TATTTATTATTATTATCAT
*
36135653 TATTATATTATTA-TATTTAT
1 TATT-TATTATTATTA-TCAT
36135673 TATTTCATTATT
1 TATTT-ATTATT
36135685 TTGTTGTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 7 0.25
20 21 0.75
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTTATTATTATTATCAT
Found at i:36141610 original size:38 final size:40
Alignment explanation
Indices: 36141521--36141626 Score: 144
Period size: 38 Copynumber: 2.7 Consensus size: 40
36141511 CACACCCGGC
*
36141521 TCATGTACATCCCCCCACATCGTGCACATAGCCGGCGCCA
1 TCATGTACATCCCCCCACATCGTGCACATAGCCAGCGCCA
* * * *
36141561 TCATGTGCATCCCCCCACATTGTGCACA-A-TCAGTGCCA
1 TCATGTACATCCCCCCACATCGTGCACATAGCCAGCGCCA
*
36141599 TCGTGTACATCCCCCCACATCGTGCACA
1 TCATGTACATCCCCCCACATCGTGCACA
36141627 CACACGATTA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 31 0.53
39 1 0.02
40 26 0.45
ACGTcount: A:0.23, C:0.41, G:0.16, T:0.21
Consensus pattern (40 bp):
TCATGTACATCCCCCCACATCGTGCACATAGCCAGCGCCA
Found at i:36144183 original size:28 final size:29
Alignment explanation
Indices: 36144137--36144202 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
36144127 AGCACATCAA
36144137 AAGTGGATG-GATACCTTTAACTC-ACCAG
1 AAGTGGATGAGATACCTTTAAC-CGACCAG
* *
36144165 AAGTGGATGAG-TACTTTTAACCGACTAG
1 AAGTGGATGAGATACCTTTAACCGACCAG
36144193 AAGTGGATGA
1 AAGTGGATGA
36144203 AAGGCCATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 1 0.03
28 32 0.94
29 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (29 bp):
AAGTGGATGAGATACCTTTAACCGACCAG
Found at i:36144382 original size:64 final size:64
Alignment explanation
Indices: 36144308--36144429 Score: 201
Period size: 64 Copynumber: 1.9 Consensus size: 64
36144298 TATACTGTTG
*
36144308 ATTTTCTTGTCCACCTTGAAA-AGGAAATTGATTATATGATTGGTAATGAAAATATCCATTTTTT
1 ATTTTCTTGTCCACCTTGAAAGAGG-AATTGATAATATGATTGGTAATGAAAATATCCATTTTTT
* *
36144372 ATTTTCTTGTCCACCTTGAAAGATGAATTGATAATTTGATTGGTAATGAAAATATCCA
1 ATTTTCTTGTCCACCTTGAAAGAGGAATTGATAATATGATTGGTAATGAAAATATCCA
36144430 AGAATAAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
64 52 0.96
65 2 0.04
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (64 bp):
ATTTTCTTGTCCACCTTGAAAGAGGAATTGATAATATGATTGGTAATGAAAATATCCATTTTTT
Found at i:36160703 original size:15 final size:15
Alignment explanation
Indices: 36160667--36160703 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
36160657 CAAGGAATGT
*
36160667 TGTTTTTTGTGAAAA
1 TGTTTTTAGTGAAAA
*
36160682 TGCTTTTAGTGAAAA
1 TGTTTTTAGTGAAAA
36160697 TGTTTTT
1 TGTTTTT
36160704 TTTTCATGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.24, C:0.03, G:0.19, T:0.54
Consensus pattern (15 bp):
TGTTTTTAGTGAAAA
Found at i:36162925 original size:15 final size:16
Alignment explanation
Indices: 36162894--36162927 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
36162884 TGATTATTTA
36162894 TTGTAAATAGTCATATT
1 TTGTAAATAGT-ATATT
36162911 TTGTAAATAGT-TATT
1 TTGTAAATAGTATATT
36162926 TT
1 TT
36162928 TATCTTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
17 11 0.65
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.53
Consensus pattern (16 bp):
TTGTAAATAGTATATT
Found at i:36164160 original size:2 final size:2
Alignment explanation
Indices: 36164153--36164177 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36164143 CAATATTCAG
36164153 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
36164178 TATGTGTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36172207 original size:12 final size:12
Alignment explanation
Indices: 36172190--36172231 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
36172180 TAAACTATGC
*
36172190 ATTTTTACTATT
1 ATTTTTATTATT
36172202 ATTTTTATTATT
1 ATTTTTATTATT
* *
36172214 ACTATTATTATT
1 ATTTTTATTATT
36172226 ATTTTT
1 ATTTTT
36172232 TATTTATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (12 bp):
ATTTTTATTATT
Found at i:36172765 original size:32 final size:33
Alignment explanation
Indices: 36172728--36172795 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
36172718 CCAATCACTC
*
36172728 TCTCCCTT-CTCTCTAATCGGCGGCACCCCAAA
1 TCTCCCTTACTCTCTAACCGGCGGCACCCCAAA
* * *
36172760 TCTCCCTTATTTTCTAGCCGGCGGCACCCCAAA
1 TCTCCCTTACTCTCTAACCGGCGGCACCCCAAA
36172793 TCT
1 TCT
36172796 TTTTTGACGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 8 0.26
33 23 0.74
ACGTcount: A:0.18, C:0.41, G:0.13, T:0.28
Consensus pattern (33 bp):
TCTCCCTTACTCTCTAACCGGCGGCACCCCAAA
Found at i:36173456 original size:9 final size:9
Alignment explanation
Indices: 36173443--36173518 Score: 77
Period size: 8 Copynumber: 8.6 Consensus size: 9
36173433 GCCCCTTCTC
36173443 TTTTTT-TT
1 TTTTTTATT
*
36173451 TCTTTTATT
1 TTTTTTATT
*
36173460 TTATTTA-T
1 TTTTTTATT
36173468 TTTTTTA-T
1 TTTTTTATT
36173476 TTTTTTATT
1 TTTTTTATT
*
36173485 TTTATTATAT
1 TTTTTTAT-T
*
36173495 TATTTTATT
1 TTTTTTATT
36173504 TTATTTTATT
1 TT-TTTTATT
36173514 TTTTT
1 TTTTT
36173519 GTTTGATTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
8 20 0.36
9 20 0.36
10 16 0.29
ACGTcount: A:0.16, C:0.01, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTATT
Found at i:36173462 original size:5 final size:5
Alignment explanation
Indices: 36173443--36173515 Score: 69
Period size: 5 Copynumber: 14.8 Consensus size: 5
36173433 GCCCCTTCTC
* * * * *
36173443 TTTTT TTTTC TTTTA TTTTA -TTTA TTTTT TTATTT TTTTA TTTT- TATTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA
*
36173492 TATTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTT
36173516 TTTGTTTGAT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
4 7 0.12
5 47 0.80
6 5 0.08
ACGTcount: A:0.16, C:0.01, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:36173488 original size:31 final size:29
Alignment explanation
Indices: 36173443--36173516 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
36173433 GCCCCTTCTC
* * *
36173443 TTTTTTTTT-CTTTTATTTTATTTATTTTT
1 TTTTTTTTTATTTTTATTATA-TTATTTTA
36173472 TTATTTTTTTATTTTTATTATATTATTTTA
1 TT-TTTTTTTATTTTTATTATATTATTTTA
*
36173502 TTTTATTTTATTTTT
1 TTTTTTTTTATTTTT
36173517 TTGTTTGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 14 0.36
30 16 0.41
31 9 0.23
ACGTcount: A:0.16, C:0.01, G:0.00, T:0.82
Consensus pattern (29 bp):
TTTTTTTTTATTTTTATTATATTATTTTA
Found at i:36178204 original size:35 final size:34
Alignment explanation
Indices: 36178117--36178259 Score: 117
Period size: 35 Copynumber: 4.1 Consensus size: 34
36178107 GTGCTGCCAA
* * *
36178117 GTTTGTGATGGAGAAAA-GAGAGGTTGTTGCTGCTG
1 GTTTGTGAGGGA-AAAAGGAGGGGTT-TTGCTGCGG
* * *
36178152 GTTTGAGAGAGAGAAAGGAGGGGTTTTGCTGTCGG
1 GTTTGTGAGGGAAAAAGGAGGGGTTTTGCTG-CGG
* * **
36178187 GTTTGTGAGGGAAAAAGGAAGGGTTGTGCCACCGG
1 GTTTGTGAGGGAAAAAGGAGGGGTTTTG-CTGCGG
** * *
36178222 GTTTGTGAGGGAAAAAGGAAAGGTTGTGCTGCCG
1 GTTTGTGAGGGAAAAAGGAGGGGTTTTGCTGCGG
36178256 GTTT
1 GTTT
36178260 TAAGAGTGAA
Statistics
Matches: 88, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
34 16 0.18
35 71 0.81
36 1 0.01
ACGTcount: A:0.24, C:0.08, G:0.42, T:0.27
Consensus pattern (34 bp):
GTTTGTGAGGGAAAAAGGAGGGGTTTTGCTGCGG
Found at i:36178491 original size:2 final size:2
Alignment explanation
Indices: 36178482--36178520 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
36178472 GTGGAAAAAA
36178482 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36178521 CAAGTGGGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:36179354 original size:62 final size:60
Alignment explanation
Indices: 36179177--36179472 Score: 359
Period size: 60 Copynumber: 4.9 Consensus size: 60
36179167 AATTTAAAAA
* * * *
36179177 GGGGACCTAAAGTTTCGATTTATAT-TGGGTGACGTGGGTAGTTCCCACAAGAAGGTAAAG
1 GGGGACCTGAAGTCTCGATTTATATAT-GGTGACGTGGGTAGTTCCCACGAGTAGGTAAAG
**
36179237 GGGGACCTGAAGTCTCGATTTATATATGGTGACGTGGGTAGTTCTTACGAGTAGGTAAAG
1 GGGGACCTGAAGTCTCGATTTATATATGGTGACGTGGGTAGTTCCCACGAGTAGGTAAAG
* *
36179297 GGGGACCAGAAGTCTCGATTTATATATATGGTGGCGTGGGTAGTTCCCACGAGTAGGTAAAG
1 GGGGACCTGAAGTCTCGA-TT-TATATATGGTGACGTGGGTAGTTCCCACGAGTAGGTAAAG
* * * * *
36179359 GGGGACCTGAAGCCTCGATTTATATATGGTGGCTTGAGTAGTTTCCACGAGTAGGTAAAG
1 GGGGACCTGAAGTCTCGATTTATATATGGTGACGTGGGTAGTTCCCACGAGTAGGTAAAG
* * * *
36179419 GGGGACCTGAAG-CTTCAATTCATATGAT-G-G-CGTGGGCAGTTCCCACGAATAGGT
1 GGGGACCTGAAGTC-TCGATTTATAT-ATGGTGACGTGGGTAGTTCCCACGAGTAGGT
36179473 GATGATGTCT
Statistics
Matches: 209, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
58 19 0.09
59 2 0.01
60 128 0.61
61 7 0.03
62 53 0.25
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (60 bp):
GGGGACCTGAAGTCTCGATTTATATATGGTGACGTGGGTAGTTCCCACGAGTAGGTAAAG
Found at i:36179400 original size:122 final size:120
Alignment explanation
Indices: 36179177--36179430 Score: 359
Period size: 122 Copynumber: 2.1 Consensus size: 120
36179167 AATTTAAAAA
*
36179177 GGGGACCTA-AAGTTTCGATTTATATTGGGTGACGTGGGTAGTTCCCACAAGAAGGTAAAGGGGG
1 GGGGACC-AGAAGTCTCGATTTATATTGGGTGACGTGGGTAGTTCCCACAAGAAGGTAAAGGGGG
* * *
36179241 ACCTGAAGTCTCGATTTATATATGGTGACGTGGGTAG-TTCTTACGAGTAGGTAAAG
65 ACCTGAAGCCTCGATTTATATATGGTGACGTGAGTAGTTTC-CACGAGTAGGTAAAG
* * * *
36179297 GGGGACCAGAAGTCTCGATTTATATATATGGTGGCGTGGGTAGTTCCCACGAGTAGGTAAAGGGG
1 GGGGACCAGAAGTCTCGATTTATAT-T-GGGTGACGTGGGTAGTTCCCACAAGAAGGTAAAGGGG
* *
36179362 GACCTGAAGCCTCGATTTATATATGGTGGCTTGAGTAGTTTCCACGAGTAGGTAAAG
64 GACCTGAAGCCTCGATTTATATATGGTGACGTGAGTAGTTTCCACGAGTAGGTAAAG
*
36179419 GGGGACCTGAAG
1 GGGGACCAGAAG
36179431 CTTCAATTCA
Statistics
Matches: 119, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
119 1 0.01
120 22 0.18
121 1 0.01
122 92 0.77
123 3 0.03
ACGTcount: A:0.26, C:0.14, G:0.33, T:0.27
Consensus pattern (120 bp):
GGGGACCAGAAGTCTCGATTTATATTGGGTGACGTGGGTAGTTCCCACAAGAAGGTAAAGGGGGA
CCTGAAGCCTCGATTTATATATGGTGACGTGAGTAGTTTCCACGAGTAGGTAAAG
Found at i:36180627 original size:20 final size:19
Alignment explanation
Indices: 36180582--36180631 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
36180572 ATACTTAAAG
36180582 TAAATTAAAACAAAATAATA
1 TAAATT-AAACAAAATAATA
36180602 TAAAATTAAACTAAAATAACT-
1 T-AAATTAAAC-AAAATAA-TA
36180623 TAAATTAAA
1 TAAATTAAA
36180632 TTACTCAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 13 0.48
21 13 0.48
22 1 0.04
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAATTAAACAAAATAATA
Found at i:36181672 original size:20 final size:20
Alignment explanation
Indices: 36181626--36181672 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
36181616 CAAAAAAATC
36181626 AAAAAAATAAAATAAATAAA
1 AAAAAAATAAAATAAATAAA
***
36181646 TGTAAAATAAAAT-AATGAAA
1 AAAAAAATAAAATAAAT-AAA
36181666 AAAAAAA
1 AAAAAAA
36181673 AGAATCGCTA
Statistics
Matches: 20, Mismatches: 6, Indels: 2
0.71 0.21 0.07
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (20 bp):
AAAAAAATAAAATAAATAAA
Found at i:36188146 original size:12 final size:12
Alignment explanation
Indices: 36188125--36188164 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
36188115 TCAAGATCAT
36188125 AAAAAC-CAAAA
1 AAAAACACAAAA
**
36188136 AAAAATTCAAAA
1 AAAAACACAAAA
36188148 AAAAACACAAAA
1 AAAAACACAAAA
36188160 AAAAA
1 AAAAA
36188165 GAAAGAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 5 0.20
12 20 0.80
ACGTcount: A:0.82, C:0.12, G:0.00, T:0.05
Consensus pattern (12 bp):
AAAAACACAAAA
Found at i:36190084 original size:28 final size:30
Alignment explanation
Indices: 36190043--36190102 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
36190033 GGCTATGGAC
*
36190043 AATTTTTCAGTTTT-TG-GGGCAAAAATGT
1 AATTTTTCACTTTTATGAGGGCAAAAATGT
* *
36190071 AATTTTTGACTTTTATGAGGGCAAAAGTGT
1 AATTTTTCACTTTTATGAGGGCAAAAATGT
36190101 AA
1 AA
36190103 ATTTCAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 12 0.44
29 2 0.07
30 13 0.48
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.40
Consensus pattern (30 bp):
AATTTTTCACTTTTATGAGGGCAAAAATGT
Found at i:36192714 original size:11 final size:12
Alignment explanation
Indices: 36192690--36192715 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36192680 ATGATGGAAC
36192690 AATCAATAAAAA
1 AATCAATAAAAA
36192702 AATCAATAAAAA
1 AATCAATAAAAA
36192714 AA
1 AA
36192716 AGCAAGTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (12 bp):
AATCAATAAAAA
Found at i:36194247 original size:21 final size:21
Alignment explanation
Indices: 36194219--36194299 Score: 94
Period size: 21 Copynumber: 3.9 Consensus size: 21
36194209 TACATTTTTC
*
36194219 TCTT-AAAACCTCCGGGTATA
1 TCTTCAAAACCTCCGGGTACA
**
36194239 TCTTCAAAACCTCCATGTACA
1 TCTTCAAAACCTCCGGGTACA
*
36194260 TCTTCAAGACCTCCGGGTACA
1 TCTTCAAAACCTCCGGGTACA
*
36194281 T-TCCTAAAACCTCCGGGTA
1 TCTTC-AAAACCTCCGGGTA
36194300 ATTAGTTTTA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
20 6 0.12
21 45 0.88
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.27
Consensus pattern (21 bp):
TCTTCAAAACCTCCGGGTACA
Found at i:36194386 original size:143 final size:143
Alignment explanation
Indices: 36194213--36194544 Score: 436
Period size: 143 Copynumber: 2.3 Consensus size: 143
36194203 AGGAGCTACA
* * *
36194213 TTTTTC-TCTTAAAACCTCCGGGTATATCTTCAAAACCTCCATGTACATCT-TCAAGACCTCCGG
1 TTTTTCTTC-TAAAACCTCCGGGTATATCTTCAAAACCTCCAGGTACATATGT-AAAACCTCCGG
** * **
36194276 GTACATTCCTAAAACCTCCGGGTAATTAGTTTTAAGATTTCTTCAAAATTACGCT-ATTTCATTT
64 GTACATTCCTAAAACCTCCAAGTAATTAGTTTTAAAATTTCTTCAAAATTACG-TGACCTCATTT
** *
36194340 TGAGATGAAGAGTATC
128 TGAGATGAAGAACAAC
* * *
36194356 TTTTTCTTCTAAAACCTCCGGGGATATCTTCAAAACCTCCGGGTACATATGTAAAACCTCTGGGT
1 TTTTTCTTCTAAAACCTCCGGGTATATCTTCAAAACCTCCAGGTACATATGTAAAACCTCCGGGT
*
36194421 ACATTCCTAAAACTTCCAAGTAATTAGTTTTAAAATTTCTTCAAAATTACGTGACCTCATTTTGA
66 ACATTCCTAAAACCTCCAAGTAATTAGTTTTAAAATTTCTTCAAAATTACGTGACCTCATTTTGA
*
36194486 GATGAGGAACAAC
131 GATGAAGAACAAC
* * *
36194499 TTTTTCTTCTAAAACCTCCGAGTACATTCTTCAAAACCTCCGGGTA
1 TTTTTCTTCTAAAACCTCCGGGTATA-TCTTCAAAACCTCCAGGTA
36194545 ATTAGCTTCA
Statistics
Matches: 166, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
142 1 0.01
143 143 0.86
144 22 0.13
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (143 bp):
TTTTTCTTCTAAAACCTCCGGGTATATCTTCAAAACCTCCAGGTACATATGTAAAACCTCCGGGT
ACATTCCTAAAACCTCCAAGTAATTAGTTTTAAAATTTCTTCAAAATTACGTGACCTCATTTTGA
GATGAAGAACAAC
Found at i:36194431 original size:21 final size:21
Alignment explanation
Indices: 36194363--36194433 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
36194353 ATCTTTTTCT
*
36194363 TCTAAAACCTCCGGG--GATA
1 TCTAAAACCTCCGGGTACATA
36194382 TCTTCAAAACCTCCGGGTACATA
1 TC-T-AAAACCTCCGGGTACATA
* *
36194405 TGTAAAACCTCTGGGTACAT-
1 TCTAAAACCTCCGGGTACATA
36194425 TCCTAAAAC
1 T-CTAAAAC
36194434 TTCCAAGTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 2 0.05
20 2 0.05
21 34 0.79
22 1 0.02
23 4 0.09
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (21 bp):
TCTAAAACCTCCGGGTACATA
Found at i:36194557 original size:23 final size:22
Alignment explanation
Indices: 36194502--36194557 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
36194492 GAACAACTTT
36194502 TTCTTCTAAAACCTCCGAGTACA
1 TTCTTC-AAAACCTCCGAGTACA
*
36194525 TTCTTCAAAACCTCCGGGTA-A
1 TTCTTCAAAACCTCCGAGTACA
36194546 TTAGCTTCAAAA
1 TT--CTTCAAAA
36194558 TTCTTTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 3 0.10
22 13 0.43
23 14 0.47
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (22 bp):
TTCTTCAAAACCTCCGAGTACA
Found at i:36194765 original size:20 final size:17
Alignment explanation
Indices: 36194713--36194765 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 17
36194703 GTAGACACCC
36194713 AAAA-AAATCAAAAAAAT
1 AAAATAAAT-AAAAAAAT
*
36194730 AAAATAAATAATAAAAT
1 AAAATAAATAAAAAAAT
36194747 AATAATATAATGAAAAAAA
1 AA-AATA-AAT-AAAAAAA
36194766 AAAGAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 13 0.43
18 8 0.27
19 3 0.10
20 6 0.20
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (17 bp):
AAAATAAATAAAAAAAT
Found at i:36204083 original size:16 final size:15
Alignment explanation
Indices: 36204059--36204092 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
36204049 TTAATTTTTT
*
36204059 AATTTTTAAAAATTAA
1 AATTATTAAAAA-TAA
36204075 AATTATTAAAAATAA
1 AATTATTAAAAATAA
36204090 AAT
1 AAT
36204093 CTACATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTATTAAAAATAA
Found at i:36204445 original size:13 final size:14
Alignment explanation
Indices: 36204416--36204455 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
36204406 TTATTATATT
36204416 AATTATTTAATAAA
1 AATTATTTAATAAA
*
36204430 AATTATTTTA-AAA
1 AATTATTTAATAAA
36204443 AATTA-TTAATAAA
1 AATTATTTAATAAA
36204456 TATATAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 3 0.13
13 11 0.48
14 9 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AATTATTTAATAAA
Found at i:36208287 original size:55 final size:53
Alignment explanation
Indices: 36208196--36208381 Score: 158
Period size: 55 Copynumber: 3.4 Consensus size: 53
36208186 TGAACTGTTA
* *
36208196 TTTTAGCGTGTCACGG-TAGTTACTAGCGTGTTGTGGGTTAACTAGTTATTTGGGT
1 TTTTAGCGTGTCACGGCT-GTT-CTGGCGTGTCGTGGGTTAACTAGTT-TTTGGGT
* * * * * *
36208251 TGTTAGCGTGTCACGGCTGTTCTTGGGGTGTGGTGGGTTAACTGAATTTATGAGT
1 TTTTAGCGTGTCACGGCTGTTC-TGGCGTGTCGTGGGTTAACT-AGTTTTTGGGT
* * * * *
36208306 TTTTGGAGTGTCATGGCTGTTCCTGGTGTGTCGTGGGTTAACTGGTTTTTTGGGT
1 TTTTAGCGTGTCACGGCTGTT-CTGGCGTGTCGTGGGTTAACTAG-TTTTTGGGT
* * *
36208361 TTTTAACATGTCACGGATGTT
1 TTTTAGCGTGTCACGGCTGTT
36208382 GGTGTAACTA
Statistics
Matches: 103, Mismatches: 23, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
54 1 0.01
55 97 0.94
56 5 0.05
ACGTcount: A:0.14, C:0.11, G:0.33, T:0.42
Consensus pattern (53 bp):
TTTTAGCGTGTCACGGCTGTTCTGGCGTGTCGTGGGTTAACTAGTTTTTGGGT
Found at i:36208432 original size:23 final size:23
Alignment explanation
Indices: 36208402--36208450 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
36208392 GTCAGTAATT
*
36208402 ACAGTGATGCATGGCGTGTCACG
1 ACAGTGATGCATGACGTGTCACG
36208425 ACAGTGATGCATGACGTGTCACG
1 ACAGTGATGCATGACGTGTCACG
36208448 ACA
1 ACA
36208451 TTTTACTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (23 bp):
ACAGTGATGCATGACGTGTCACG
Found at i:36212027 original size:31 final size:31
Alignment explanation
Indices: 36211981--36212306 Score: 298
Period size: 31 Copynumber: 10.5 Consensus size: 31
36211971 AATAAGGAAT
*
36211981 AAATG-TGAGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
36212011 AAATGTTGTGACACGCCGTGCATATCAAATA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * *
36212042 AAATATTGTAACACGCCATTCATAACAAGAA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
***
36212073 AAATGAAATGACACGCCATGCATAACAAGATA
1 AAATGTTGTGACACGCCATGCATAACAAG-TA
* * * * * **
36212105 AACT-TGGTGACACGCCAAGGATAACGACCA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
36212135 AAATGTTCTGACACGTCATGCATAACAATTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
36212166 AAATGTTGTGACACGCCATGCATAACAAGTTA
1 AAATGTTGTGACACGCCATGCATAACAAG-TA
* * * * * *
36212198 AACT-TGGTGACACGTCAAGGATAACAAGCA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * *
36212228 AAATGTTTTGACACGCCATGCATATCAAAATC
1 AAATGTTGTGACACGCCATGCATAAC-AAGTA
* * *
36212260 AAACGTTGTGACATGCCATGAATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
36212291 AAATGTTGTGACACGC
1 AAATGTTGTGACACGC
36212307 TAAAGCTTAC
Statistics
Matches: 226, Mismatches: 64, Indels: 11
0.75 0.21 0.04
Matches are distributed among these distances:
30 13 0.06
31 181 0.80
32 32 0.14
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATAACAAGTA
Found at i:36212955 original size:156 final size:156
Alignment explanation
Indices: 36212661--36213156 Score: 656
Period size: 156 Copynumber: 3.2 Consensus size: 156
36212651 CGACTGGGTT
* * * *
36212661 AACTACAATAACATATGTAACTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCG
1 AACTGCAATTACATATTTAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCG
* * * *
36212726 TTACAACTTTAATATCCTAACTAG-TGGCTCGTTAACAGTCTGCGGTGGAGCCGGATCGATCGGT
66 TTACAACTTTAATATCCTTAC-CGCTGGCTCGTTAGCAGTCTGCGGTGGAGCCGGACCGATCGGT
* *
36212790 GCTTTAGGACCTGTCGTCGCTTTCGCA
130 GCTTCAGGACCTGTCGTCGCTTTCGTA
* * *
36212817 TACTGCAATTACATATTTAACTGTGTTATTCAATAATCATGTATGAAATTGTTGAACATTAACTG
1 AACTGCAATTACATATTTAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCG
* *
36212882 TTACAACTTTAATATCTTTACCGCTGGCTCGTTAGCAGTCTGCGGTGGAGCCGGACCAATCGGTG
66 TTACAACTTTAATATCCTTACCGCTGGCTCGTTAGCAGTCTGCGGTGGAGCCGGACCGATCGGTG
*
36212947 CTTCAGGACCTGTCGTCGCTTCCGTA
131 CTTCAGGACCTGTCGTCGCTTTCGTA
* * *
36212973 AACTGCAATTACATATATAATTGTGTTATTCAATAATCATGTTTGGAATTGTTGAACATTAACCG
1 AACTGCAATTACATATTTAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCG
*** * * * **
36213038 TTACAACTTTAATATCCTTACCGCCAACTCATTAGCTGTCTGCGGT-TAGGTTGGACCGATCGGT
66 TTACAACTTTAATATCCTTACCGCTGGCTCGTTAGCAGTCTGCGGTGGA-GCCGGACCGATCGGT
* * *
36213102 GCTTGAGGACCTATCCTCGCTTTCGTA
130 GCTTCAGGACCTGTCGTCGCTTTCGTA
* *
36213129 AACTGTAATTACATAAATT-ACTGTGTTA
1 AACTGCAATTACAT-ATTTAACTGTGTTA
36213157 CTCGATAAAC
Statistics
Matches: 297, Mismatches: 40, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
155 2 0.01
156 293 0.99
157 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (156 bp):
AACTGCAATTACATATTTAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCG
TTACAACTTTAATATCCTTACCGCTGGCTCGTTAGCAGTCTGCGGTGGAGCCGGACCGATCGGTG
CTTCAGGACCTGTCGTCGCTTTCGTA
Found at i:36214826 original size:31 final size:30
Alignment explanation
Indices: 36214788--36215152 Score: 243
Period size: 31 Copynumber: 11.5 Consensus size: 30
36214778 AATAAGGAAT
36214788 AAATGTTGTGACACGCCATGCATTGCAA-TCA
1 AAATGTTGTGACACGCCATGCATT-CAAGT-A
*
36214819 AAATGTTGTGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCAT-TCAAGTA
* * * *
36214850 AAATGTTATGACACGCCACGCATAACAAGTT
1 AAATGTTGTGACACGCCATGCAT-TCAAGTA
* *
36214881 AAATATTGTGACACGCCATGCATATCAAGTT
1 AAATGTTGTGACACGCCATGCAT-TCAAGTA
* *
36214912 AAAGGTTATGACACGCCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCAT-TCAAGTA
* * *
36214943 AAATGTTGTCAAACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCAT-TCAAGTA
* * * * *
36214974 AAATGCTATCAAACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCAT-TCAAGTA
*
36215005 AAAT-TCTGTGACACGACATGCATATCAAGTAA
1 AAATGT-TGTGACACGCCATGCAT-TCAAGT-A
* * * * *
36215037 AATACTGTCAAACGNTCAAACGGCATGCATAACAAGTA
1 AA-A-TGT----TG-TGACACGCCATGCAT-TCAAGTA
* *
36215075 AAAT-TCTGTGACATGACATGCATATCAAGTA
1 AAATGT-TGTGACACGCCATGCAT-TCAAGTA
* * *
36215106 AAATGTTGTCACACGCTATGCAAAAT-AAGTA
1 AAATGTTGTGACACGCCATGC--ATTCAAGTA
36215137 AAATGTTGTGACACGC
1 AAATGTTGTGACACGC
36215153 TAATAACTAA
Statistics
Matches: 276, Mismatches: 44, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
31 240 0.87
32 7 0.03
33 2 0.01
34 1 0.00
35 2 0.01
36 1 0.00
37 1 0.00
38 4 0.01
39 18 0.07
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (30 bp):
AAATGTTGTGACACGCCATGCATTCAAGTA
Found at i:36214890 original size:62 final size:62
Alignment explanation
Indices: 36214788--36215152 Score: 349
Period size: 62 Copynumber: 5.8 Consensus size: 62
36214778 AATAAGGAAT
* **
36214788 AAATGTTGTGACACGCCATGCATTGCAA-TCAAAATGTTGTGACACGCCATGCATAACAAGTA
1 AAATGTTATGACACGCCATGCATAACAAGT-AAAATGTTGTGACACGCCATGCATAACAAGTA
* * * * *
36214850 AAATGTTATGACACGCCACGCATAACAAGTTAAATATTGTGACACGCCATGCATATCAAGTT
1 AAATGTTATGACACGCCATGCATAACAAGTAAAATGTTGTGACACGCCATGCATAACAAGTA
* * * *
36214912 AAAGGTTATGACACGCCATGCATATCAAGTAAAATGTTGTCAAACGCCATGCATAACAAGTA
1 AAATGTTATGACACGCCATGCATAACAAGTAAAATGTTGTGACACGCCATGCATAACAAGTA
* * * * *
36214974 AAATGCTATCAAACGCCATGCATAACAAGTAAAAT-TCTGTGACACGACATGCATATCAAGTAA
1 AAATGTTATGACACGCCATGCATAACAAGTAAAATGT-TGTGACACGCCATGCATAACAAGT-A
* * * * * * *
36215037 AATACTGTCAAACGNTCAAACGGCATGCATAACAAGTAAAAT-TCTGTGACATGACATGCATATC
1 AA-A-TGT--TA---TGACACGCCATGCATAACAAGTAAAATGT-TGTGACACGCCATGCATAAC
36215101 AAGTA
58 AAGTA
* * * * *
36215106 AAATGTTGTCACACGCTATGCAAAATAAGTAAAATGTTGTGACACGC
1 AAATGTTATGACACGCCATGCATAACAAGTAAAATGTTGTGACACGC
36215153 TAATAACTAA
Statistics
Matches: 253, Mismatches: 39, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
61 1 0.00
62 185 0.73
63 5 0.02
64 1 0.00
65 2 0.01
67 4 0.02
68 1 0.00
69 3 0.01
70 51 0.20
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (62 bp):
AAATGTTATGACACGCCATGCATAACAAGTAAAATGTTGTGACACGCCATGCATAACAAGTA
Found at i:36214946 original size:93 final size:93
Alignment explanation
Indices: 36214787--36215143 Score: 312
Period size: 93 Copynumber: 3.8 Consensus size: 93
36214777 AAATAAGGAA
* *
36214787 TAAATGTTGTGACACGCCATGCAT-TGCAA-TCAAAATGTTGTGACACGCCATGCATAACAAGTA
1 TAAATGTTGTGACACGCCATGCATAT-CAAGTTAAAA-GTTGTGACACGCCATGCATATCAAGTA
* *
36214850 AAATGTTATGACACGCCACGCATAACAAGT
64 AAATGTTATCAAACGCCACGCATAACAAGT
* * *
36214880 TAAATATTGTGACACGCCATGCATATCAAGTTAAAGGTTATGACACGCCATGCATATCAAGTAAA
1 TAAATGTTGTGACACGCCATGCATATCAAGTTAAAAGTTGTGACACGCCATGCATATCAAGTAAA
* *
36214945 ATGTTGTCAAACGCCATGCATAACAAGT
66 ATGTTATCAAACGCCACGCATAACAAGT
* * * * * * * *
36214973 AAAATGCTATCAAACGCCATGCATAACAAG-TAAAATTCTGTGACACGACATGCATATCAAGTAA
1 TAAATGTTGTGACACGCCATGCATATCAAGTTAAAAGT-TGTGACACGCCATGCATATCAAGT-A
* * *
36215037 AATACTGTCAAACGNTCAAACGGCATGCATAACAAGT
64 AA-A-TGT--TA---TCAAACGCCACGCATAACAAGT
* * * * * *
36215074 AAAAT-TCTGTGACATGACATGCATATCAAG-TAAAATGTTGTCACACGCTATGCAAAAT-AAGT
1 TAAATGT-TGTGACACGCCATGCATATCAAGTTAAAA-GTTGTGACACGCCATGC-ATATCAAGT
36215136 AAAATGTT
63 AAAATGTT
36215144 GTGACACGCT
Statistics
Matches: 214, Mismatches: 36, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
92 5 0.02
93 122 0.57
94 8 0.04
95 1 0.00
96 3 0.01
98 3 0.01
99 1 0.00
100 3 0.01
101 64 0.30
102 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.24
Consensus pattern (93 bp):
TAAATGTTGTGACACGCCATGCATATCAAGTTAAAAGTTGTGACACGCCATGCATATCAAGTAAA
ATGTTATCAAACGCCACGCATAACAAGT
Found at i:36215127 original size:101 final size:100
Alignment explanation
Indices: 36214950--36215140 Score: 235
Period size: 101 Copynumber: 1.9 Consensus size: 100
36214940 GTAAAATGTT
* *
36214950 GTCAAACGCCATGCATAACAAGTAAAATGCTATCAAACGCCATGCATAACAAGTAAAATTCTGTG
1 GTCAAACGCCATGCATAACAAGTAAAATGCTATCAAACGACATGCATAACAAGTAAAATTCTGTC
*
36215015 ACACGACATGC-ATATCAAGTAAAATACTGTCAAAC
66 ACACGACATGCAAAAT-AAGTAAAATACTGTCAAAC
* * * * * * *
36215050 GNTCAAACGGCATGCATAACAAGTAAAATTCTGTGACATGACATGCATATCAAGTAAAATGT-TG
1 G-TCAAACGCCATGCATAACAAGTAAAATGCTATCAAACGACATGCATAACAAGTAAAAT-TCTG
36215114 TCACACG-CTATGCAAAATAAGTAAAAT
64 TCACACGAC-ATGCAAAATAAGTAAAAT
36215141 GTTGTGACAC
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
100 2 0.03
101 71 0.92
102 4 0.05
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.23
Consensus pattern (100 bp):
GTCAAACGCCATGCATAACAAGTAAAATGCTATCAAACGACATGCATAACAAGTAAAATTCTGTC
ACACGACATGCAAAATAAGTAAAATACTGTCAAAC
Found at i:36215791 original size:47 final size:45
Alignment explanation
Indices: 36215719--36215974 Score: 217
Period size: 47 Copynumber: 5.5 Consensus size: 45
36215709 TAAACATGAT
* *
36215719 CATGGCTTGTCACCAACTCTGAACTCTGATGTGTCACAGATTCCCTC
1 CATGGCGTCTCACCAACTCTGAACTCT-A-GTGTCACAGATTCCCTC
* * * * * **
36215766 CATGGCATGTCACTAACTCTTAACTCTAGCGTCTAACAGATTCAATC
1 CATGGCGTCTCACCAACTCTGAACTCTAGTGTC--ACAGATTCCCTC
* *
36215813 CATGGCGTCTCACCAACCCTGAACGCTAGTGTGTCACAGATTCCCTC
1 CATGGCGTCTCACCAACTCTGAACTCTA--GTGTCACAGATTCCCTC
* * * * *
36215860 CATGGCGTCTCACAAACTCTAAACCCTACCGTGTCACACATTCCCAC
1 CATGGCGTCTCACCAACTCTGAACTCTA--GTGTCACAGATTCCCTC
* * * * *
36215907 CATGACGTGTCACCAACTTTTAACTC-AGCATCTCACAGATTCCCTC
1 CATGGCGTCTCACCAACTCTGAACTCTAG--TGTCACAGATTCCCTC
*
36215953 CAGGGCGTCTCACCAACTCTGA
1 CATGGCGTCTCACCAACTCTGA
36215975 GTGGTGCCGT
Statistics
Matches: 166, Mismatches: 37, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
44 1 0.01
45 4 0.02
46 32 0.19
47 125 0.75
49 4 0.02
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.26
Consensus pattern (45 bp):
CATGGCGTCTCACCAACTCTGAACTCTAGTGTCACAGATTCCCTC
Found at i:36215910 original size:94 final size:94
Alignment explanation
Indices: 36215719--36215972 Score: 271
Period size: 94 Copynumber: 2.7 Consensus size: 94
36215709 TAAACATGAT
* * * *
36215719 CATGGCTTGTCACCAACTCTGAACTCT-GATGTGTCACAGATTCCCTCCATGGCATGTCACTAAC
1 CATGGCGTGTCACCAACTCTGAACTCTAG-TGTGTCACAGATTCCCTCCATGGCGTCTCACAAAC
* * * *
36215783 TCTTAACTCTAGCGTCTAACAGATTCAATC
65 TCTAAACCCTACCGTCTAACACATTCAATC
* * *
36215813 CATGGCGTCTCACCAACCCTGAACGCTAGTGTGTCACAGATTCCCTCCATGGCGTCTCACAAACT
1 CATGGCGTGTCACCAACTCTGAACTCTAGTGTGTCACAGATTCCCTCCATGGCGTCTCACAAACT
* * *
36215878 CTAAACCCTACCGTGTCACACATTCCCA-C
66 CTAAACCCTACCGTCTAACACATT-CAATC
* * * ** * * *
36215907 CATGACGTGTCACCAACTTTTAACTC-AGCATCTCACAGATTCCCTCCAGGGCGTCTCACCAACT
1 CATGGCGTGTCACCAACTCTGAACTCTAGTGTGTCACAGATTCCCTCCATGGCGTCTCACAAACT
36215971 CT
66 CT
36215973 GAGTGGTGCC
Statistics
Matches: 133, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
93 35 0.26
94 95 0.71
95 3 0.02
ACGTcount: A:0.25, C:0.35, G:0.15, T:0.26
Consensus pattern (94 bp):
CATGGCGTGTCACCAACTCTGAACTCTAGTGTGTCACAGATTCCCTCCATGGCGTCTCACAAACT
CTAAACCCTACCGTCTAACACATTCAATC
Found at i:36216013 original size:140 final size:141
Alignment explanation
Indices: 36215749--36216026 Score: 326
Period size: 140 Copynumber: 2.0 Consensus size: 141
36215739 GAACTCTGAT
* * * * *
36215749 GTGTCACAGATTCCCTCCATGGCATGTCACTAACTCTTAACTCTAGCGTCTAACAGATTCAATCC
1 GTGTCACACATTCCCACCATGACATGTCACCAACTCTTAACTCTAGCATCTAACAGATTCAATCC
* * * * ** * *
36215814 ATGGCGTCTCACCAACCCTGAACGCTAGTGTGTCACAGATTCCCTCCATGGCGTCTCACAAACTC
66 AGGGCGTCTCACCAACCCTGAACGCTAGCGTCTCACACATTCCCAACATGACATCTCACAAACTC
36215879 TAAACCCTACC
131 TAAACCCTACC
* * * **
36215890 GTGTCACACATTCCCACCATGACGTGTCACCAACTTTTAACTC-AGCATCTCACAGATTCCCTCC
1 GTGTCACACATTCCCACCATGACATGTCACCAACTCTTAACTCTAGCATCTAACAGATTCAATCC
* ** * *
36215954 AGGGCGTCTCACCAACTCTGAGTGGT-GCCGTCTCACACATTCCCAACATGACATTTCACAAACT
66 AGGGCGTCTCACCAACCCTGAACGCTAG-CGTCTCACACATTCCCAACATGACATCTCACAAACT
36216018 CTAAACCCT
130 CTAAACCCT
36216027 GCCTTGCGAC
Statistics
Matches: 113, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
139 1 0.01
140 75 0.66
141 37 0.33
ACGTcount: A:0.26, C:0.35, G:0.14, T:0.25
Consensus pattern (141 bp):
GTGTCACACATTCCCACCATGACATGTCACCAACTCTTAACTCTAGCATCTAACAGATTCAATCC
AGGGCGTCTCACCAACCCTGAACGCTAGCGTCTCACACATTCCCAACATGACATCTCACAAACTC
TAAACCCTACC
Found at i:36227084 original size:14 final size:14
Alignment explanation
Indices: 36227049--36227091 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
36227039 TTTATTTTTA
36227049 ATTTTT-TATTATTT
1 ATTTTTATATTA-TT
*
36227063 ATTATTATATTATT
1 ATTTTTATATTATT
*
36227077 ATTTTTATACTATT
1 ATTTTTATATTATT
36227091 A
1 A
36227092 CAAAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTTATATTATT
Found at i:36231160 original size:38 final size:36
Alignment explanation
Indices: 36231103--36231178 Score: 107
Period size: 38 Copynumber: 2.1 Consensus size: 36
36231093 TATAGGATCA
**
36231103 GAAATCATAAGTCATGTAATTATGTATCATGTCTTG
1 GAAATCATAAGTCATGTAATTACATATCATGTCTTG
*
36231139 GAAATCATAACTGTCATGTAATTACATATTATGTCTTG
1 GAAATCATAA--GTCATGTAATTACATATCATGTCTTG
36231177 GA
1 GA
36231179 TTTTTCTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
36 10 0.29
38 25 0.71
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (36 bp):
GAAATCATAAGTCATGTAATTACATATCATGTCTTG
Found at i:36233851 original size:21 final size:21
Alignment explanation
Indices: 36233798--36233880 Score: 58
Period size: 21 Copynumber: 3.8 Consensus size: 21
36233788 TAATCACTGT
* *
36233798 GTGACTAGTTTTTAGGCATTAT
1 GTGACTAG-TTTTAAGCATTAC
* * *
36233820 ATGATTGGTTTTAAGCATTAC
1 GTGACTAGTTTTAAGCATTAC
* *
36233841 GTGACTAGTTTTTAGACATTGC
1 GTGACTAGTTTTAAG-CATTAC
* *
36233863 GTGAGTGATTTTTAAGCA
1 GTGACT-AGTTTTAAGCA
36233881 ATGCCTAAGT
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
21 22 0.48
22 17 0.37
23 7 0.15
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.42
Consensus pattern (21 bp):
GTGACTAGTTTTAAGCATTAC
Found at i:36233860 original size:22 final size:21
Alignment explanation
Indices: 36233798--36233866 Score: 66
Period size: 22 Copynumber: 3.2 Consensus size: 21
36233788 TAATCACTGT
*
36233798 GTGACTAGTTTTTAGGCATTAT
1 GTGACTAGTTTTTA-GCATTAC
* * * *
36233820 ATGATTGGTTTTAAGCATTAC
1 GTGACTAGTTTTTAGCATTAC
*
36233841 GTGACTAGTTTTTAGACATTGC
1 GTGACTAGTTTTTAG-CATTAC
36233863 GTGA
1 GTGA
36233867 GTGATTTTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
21 17 0.47
22 19 0.53
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.42
Consensus pattern (21 bp):
GTGACTAGTTTTTAGCATTAC
Found at i:36233921 original size:23 final size:23
Alignment explanation
Indices: 36233887--36233996 Score: 123
Period size: 23 Copynumber: 4.7 Consensus size: 23
36233877 AGCAATGCCT
*
36233887 AAGTCACACAATGCCTTACTAAC
1 AAGTCACGCAATGCCTTACTAAC
*
36233910 TAA-TCATGCAATGCCTTACTAAC
1 -AAGTCACGCAATGCCTTACTAAC
36233933 AAGTCACGCAATGCCTTACTAAC
1 AAGTCACGCAATGCCTTACTAAC
* * *
36233956 AAGTCACGTAATACCTTATCAAAAAC
1 AAGTCACGCAATGCCTTA-C--TAAC
*
36233982 TAGTCACGCAATGCC
1 AAGTCACGCAATGCC
36233997 CAAAGTTAGT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
22 2 0.03
23 53 0.73
24 3 0.04
26 15 0.21
ACGTcount: A:0.37, C:0.28, G:0.11, T:0.24
Consensus pattern (23 bp):
AAGTCACGCAATGCCTTACTAAC
Found at i:36233973 original size:46 final size:48
Alignment explanation
Indices: 36233887--36234089 Score: 136
Period size: 46 Copynumber: 4.3 Consensus size: 48
36233877 AGCAATGCCT
* * * *
36233887 AAGTCACACAATGCCTTACTAACTAATCATGCAATGCCTTA-C-TAAC
1 AAGTCACGCAATGCCTTACTAACTAATCACGCAATACCTTATCAAAAC
*
36233933 AAGTCACGCAATGCCTTACTAAC-AAGTCACGTAATACCTTATCAAAAAC
1 AAGTCACGCAATGCCTTACTAACTAA-TCACGCAATACCTTATC-AAAAC
* * * * * *
36233982 TAGTCACGCAATGCC---CAAAGTTAGTCACACAATGCC-TATC--AAC
1 AAGTCACGCAATGCCTTACTAA-CTAATCACGCAATACCTTATCAAAAC
* * * *
36234025 TAGTCACGAAATGCCTTATCAGAAACTAGTCACGCAATACCTTATCAGAAAC
1 AAGTCACGCAATGCCTTA-C--TAACTAATCACGCAATACCTTATCA-AAAC
*
36234077 TAGTCACGCAATG
1 AAGTCACGCAATG
36234090 TCCAAAGTCA
Statistics
Matches: 124, Mismatches: 17, Indels: 26
0.74 0.10 0.16
Matches are distributed among these distances:
43 17 0.14
45 2 0.02
46 41 0.33
47 11 0.09
48 14 0.11
49 24 0.19
52 15 0.12
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.23
Consensus pattern (48 bp):
AAGTCACGCAATGCCTTACTAACTAATCACGCAATACCTTATCAAAAC
Found at i:36233987 original size:26 final size:26
Alignment explanation
Indices: 36233934--36234183 Score: 182
Period size: 26 Copynumber: 10.4 Consensus size: 26
36233924 CTTACTAACA
* *
36233934 AGTCACGCAATGCCTTA-C--TAACA
1 AGTCACGCAATGCCTTATCAAAAACT
* *
36233957 AGTCACGTAATACCTTATCAAAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
**
36233983 AGTCACGCAATGCC----C-AAAGTT
1 AGTCACGCAATGCCTTATCAAAAACT
*
36234004 AGTCACACAATGCC-TATC---AACT
1 AGTCACGCAATGCCTTATCAAAAACT
* *
36234026 AGTCACGAAATGCCTTATCAGAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
* *
36234052 AGTCACGCAATACCTTATCAGAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
* **
36234078 AGTCACGCAATG---T-CCAAAGTC-
1 AGTCACGCAATGCCTTATCAAAAACT
36234099 AGTCACGCAATGCC-TATC---AACT
1 AGTCACGCAATGCCTTATCAAAAACT
* *
36234121 AGTCACTCAATGCCTTATCAGAAACT
1 AGTCACGCAATGCCTTATCAAAAACT
** *
36234147 AGTCACGCAATATCTTATCAAAAATT
1 AGTCACGCAATGCCTTATCAAAAACT
36234173 AGTCACGCAAT
1 AGTCACGCAAT
36234184 ACCCAAAGTC
Statistics
Matches: 180, Mismatches: 29, Indels: 33
0.74 0.12 0.14
Matches are distributed among these distances:
21 30 0.17
22 32 0.18
23 25 0.14
24 3 0.02
26 90 0.50
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.24
Consensus pattern (26 bp):
AGTCACGCAATGCCTTATCAAAAACT
Found at i:36234056 original size:95 final size:95
Alignment explanation
Indices: 36233957--36234204 Score: 406
Period size: 95 Copynumber: 2.6 Consensus size: 95
36233947 CTTACTAACA
* * *
36233957 AGTCACGTAATACCTTATCAAAAACTAGTCACGCAATGCCCAAAGTTAGTCACACAATGCCTATC
1 AGTCACGCAATACCTTATCAAAAACTAGTCACGCAATGCCCAAAGTCAGTCACGCAATGCCTATC
36234022 AACTAGTCACGAAATGCCTTATCAGAAACT
66 AACTAGTCACGAAATGCCTTATCAGAAACT
* *
36234052 AGTCACGCAATACCTTATCAGAAACTAGTCACGCAATGTCCAAAGTCAGTCACGCAATGCCTATC
1 AGTCACGCAATACCTTATCAAAAACTAGTCACGCAATGCCCAAAGTCAGTCACGCAATGCCTATC
**
36234117 AACTAGTCACTCAATGCCTTATCAGAAACT
66 AACTAGTCACGAAATGCCTTATCAGAAACT
* * *
36234147 AGTCACGCAATATCTTATCAAAAATTAGTCACGCAATACCCAAAGTCAGTCACGCAAT
1 AGTCACGCAATACCTTATCAAAAACTAGTCACGCAATGCCCAAAGTCAGTCACGCAAT
36234205 ATCCAAAGTC
Statistics
Matches: 141, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
95 141 1.00
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23
Consensus pattern (95 bp):
AGTCACGCAATACCTTATCAAAAACTAGTCACGCAATGCCCAAAGTCAGTCACGCAATGCCTATC
AACTAGTCACGAAATGCCTTATCAGAAACT
Found at i:36234099 original size:69 final size:67
Alignment explanation
Indices: 36234026--36234157 Score: 183
Period size: 69 Copynumber: 1.9 Consensus size: 67
36234016 CCTATCAACT
36234026 AGTCACGAAATGCCTTATCAGAAACTAGTCACGCAATACCTTATCAGAAACTAGTCACGCAATGT
1 AGTCACGAAATGCC-TATC---AACTAGTCACGCAATACCTTATCAGAAACTAGTCACGCAATGT
36234091 CCAAAGTC
62 CCAAA--C
* * *
36234099 AGTCACGCAATGCCTATCAACTAGTCACTCAATGCCTTATCAGAAACTAGTCACGCAAT
1 AGTCACGAAATGCCTATCAACTAGTCACGCAATACCTTATCAGAAACTAGTCACGCAAT
36234158 ATCTTATCAA
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
69 39 0.70
72 4 0.07
73 13 0.23
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (67 bp):
AGTCACGAAATGCCTATCAACTAGTCACGCAATACCTTATCAGAAACTAGTCACGCAATGTCCAA
AC
Found at i:36234194 original size:69 final size:66
Alignment explanation
Indices: 36234052--36234205 Score: 148
Period size: 69 Copynumber: 2.2 Consensus size: 66
36234042 ATCAGAAACT
* * *
36234052 AGTCACGCAATACCTTATCAGAAACTAGTCACGCAATGTCCAAAGTCAGTCACGCAATGCCTATC
1 AGTCACGCAATACCTTATCAGAAACTAGTCACGCAATATCCAAAATCAGTCACGCAATACC--TC
36234117 AAC
64 AAC
* * *
36234120 TAGTCACTCAATGCCTTATCAGAAACTAGTCACGCAATATCTTATCAAAAATTAGTCACGCAATA
1 -AGTCACGCAATACCTTATCAGAAACTAGTCACGCAATATC----C-AAAATCAGTCACGCAATA
36234185 CC-CAAAGTC
60 CCTC-AA--C
36234194 AGTCACGCAATA
1 AGTCACGCAATA
36234206 TCCAAAGTCA
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
69 37 0.54
71 1 0.01
72 2 0.03
73 11 0.16
74 18 0.26
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23
Consensus pattern (66 bp):
AGTCACGCAATACCTTATCAGAAACTAGTCACGCAATATCCAAAATCAGTCACGCAATACCTCAA
C
Found at i:36234197 original size:21 final size:21
Alignment explanation
Indices: 36234173--36234221 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
36234163 ATCAAAAATT
36234173 AGTCACGCAATACCCAAAGTC
1 AGTCACGCAATACCCAAAGTC
*
36234194 AGTCACGCAATATCCAAAGTC
1 AGTCACGCAATACCCAAAGTC
36234215 AGTCACG
1 AGTCACG
36234222 TAATTCTCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.31, G:0.16, T:0.16
Consensus pattern (21 bp):
AGTCACGCAATACCCAAAGTC
Found at i:36234232 original size:21 final size:20
Alignment explanation
Indices: 36234173--36234232 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
36234163 ATCAAAAATT
*
36234173 AGTCACGCAATACCCAAAGTC
1 AGTCACGCAAT-TCCAAAGTC
36234194 AGTCACGCAATATCCAAAGTC
1 AGTCACGCAAT-TCCAAAGTC
*
36234215 AGTCACGTAATTCTCAAA
1 AGTCACGCAATTC-CAAA
36234233 AATCACCACA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 2 0.06
21 34 0.94
ACGTcount: A:0.38, C:0.28, G:0.13, T:0.20
Consensus pattern (20 bp):
AGTCACGCAATTCCAAAGTC
Found at i:36244529 original size:13 final size:14
Alignment explanation
Indices: 36244511--36244543 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
36244501 AAAAATATGC
36244511 AAATAATTA-TACA
1 AAATAATTATTACA
*
36244524 AAATAATTATTTCA
1 AAATAATTATTACA
36244538 AAATAA
1 AAATAA
36244544 ATGAAAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATAATTATTACA
Found at i:36247552 original size:4 final size:4
Alignment explanation
Indices: 36247538--36247579 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
36247528 CCTTTACCTC
*
36247538 TCTT T-TT TCTT TCTT TCTT TCTT T-TT TCTT T-TT TTTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
36247580 TGTTTCTTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
3 9 0.26
4 25 0.74
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (4 bp):
TCTT
Found at i:36247565 original size:11 final size:11
Alignment explanation
Indices: 36247543--36247579 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
36247533 ACCTCTCTTT
36247543 TTTCTTTCTTTC
1 TTTCTTT-TTTC
36247555 TTTCTTTTTTC
1 TTTCTTTTTTC
*
36247566 TTTTTTTTTTC
1 TTTCTTTTTTC
36247577 TTT
1 TTT
36247580 TGTTTCTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.71
12 7 0.29
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:36247576 original size:26 final size:27
Alignment explanation
Indices: 36247538--36247588 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
36247528 CCTTTACCTC
36247538 TCTTTTTTCTTTC-TTTCTTTCTTTTT
1 TCTTTTTTCTTTCTTTTCTTTCTTTTT
* *
36247564 TCTTTTTTTTTTCTTTTGTTTCTTT
1 TCTTTTTTCTTTCTTTTCTTTCTTT
36247589 GAGACTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (27 bp):
TCTTTTTTCTTTCTTTTCTTTCTTTTT
Found at i:36247589 original size:8 final size:8
Alignment explanation
Indices: 36247538--36247579 Score: 54
Period size: 7 Copynumber: 5.6 Consensus size: 8
36247528 CCTTTACCTC
36247538 TCTTT-TT
1 TCTTTCTT
36247545 TCTTTCTT
1 TCTTTCTT
36247553 TCTTTCTT
1 TCTTTCTT
36247561 T-TTTCTT
1 TCTTTCTT
*
36247568 T-TTTTTT
1 TCTTTCTT
36247575 TCTTT
1 TCTTT
36247580 TGTTTCTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
7 18 0.56
8 14 0.44
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (8 bp):
TCTTTCTT
Found at i:36260920 original size:6 final size:6
Alignment explanation
Indices: 36260895--36260938 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
36260885 TAGATGAGGG
* * *
36260895 AAGAGA CAGACA AAGTGA AAGAGA AAGAGA AAGAGA AAGAGA AA
1 AAGAGA AAGAGA AAGAGA AAGAGA AAGAGA AAGAGA AAGAGA AA
36260939 AGGCAGCTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.64, C:0.05, G:0.30, T:0.02
Consensus pattern (6 bp):
AAGAGA
Found at i:36283189 original size:7 final size:7
Alignment explanation
Indices: 36283177--36283214 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
36283167 AAGAGACGTT
36283177 TGCAGTG
1 TGCAGTG
36283184 TGCAGTG
1 TGCAGTG
36283191 TGCAGTG
1 TGCAGTG
36283198 TGCAGTG
1 TGCAGTG
36283205 TGCAGTG
1 TGCAGTG
36283212 TGC
1 TGC
36283215 CAAAGGGTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.13, C:0.16, G:0.42, T:0.29
Consensus pattern (7 bp):
TGCAGTG
Found at i:36289064 original size:22 final size:20
Alignment explanation
Indices: 36289030--36289069 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
36289020 TGGAGTACAT
36289030 AAAAAAAAAATAAAAAGAGA
1 AAAAAAAAAATAAAAAGAGA
36289050 AAAAAAAAGAGATAAAAAGA
1 AAAAAAAA-A-ATAAAAAGA
36289070 TGCCCTTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 1 0.06
22 9 0.50
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (20 bp):
AAAAAAAAAATAAAAAGAGA
Found at i:36289315 original size:2 final size:2
Alignment explanation
Indices: 36289308--36289344 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
36289298 CACATGCATG
*
36289308 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36289345 AAAGTTATCC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:36291294 original size:23 final size:22
Alignment explanation
Indices: 36291262--36291304 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
36291252 CTGATTTAAT
*
36291262 AATGAGAATATTTTTTATTAAAA
1 AATGAGAATA-TATTTATTAAAA
*
36291285 AATGATAATATATTTATTAA
1 AATGAGAATATATTTATTAA
36291305 TTCCAACAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (22 bp):
AATGAGAATATATTTATTAAAA
Found at i:36292558 original size:2 final size:2
Alignment explanation
Indices: 36292545--36292586 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
36292535 GTATAGTATG
*
36292545 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36292587 TATTTGGGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36294822 original size:20 final size:20
Alignment explanation
Indices: 36294797--36294844 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
36294787 TCTTTGCTGC
36294797 CTTTCTTTCCTAACTGGGTT
1 CTTTCTTTCCTAACTGGGTT
*
36294817 CTTTCTTTCCTAATTGGGTT
1 CTTTCTTTCCTAACTGGGTT
36294837 CTTTCTTT
1 CTTTCTTT
36294845 TTGCTGTTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.08, C:0.23, G:0.12, T:0.56
Consensus pattern (20 bp):
CTTTCTTTCCTAACTGGGTT
Found at i:36308809 original size:2 final size:2
Alignment explanation
Indices: 36308804--36308831 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
36308794 TGTGTGTGTG
36308804 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
36308832 GGAGCATGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36318908 original size:2 final size:2
Alignment explanation
Indices: 36318901--36318981 Score: 92
Period size: 2 Copynumber: 39.5 Consensus size: 2
36318891 ATCAAACATC
* * * *
36318901 TA TA TA TA CA TA CA TA CA TA TA TA TA TA TA TA TA TA TA TA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36318943 GTA -A GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TA T
1 -TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
36318982 CATGTCAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
1 1 0.01
2 62 0.93
3 4 0.06
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (2 bp):
TA
Found at i:36320218 original size:2 final size:2
Alignment explanation
Indices: 36320211--36320252 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
36320201 TTGAGATATT
36320211 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
36320253 AGTAAAGGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:36320492 original size:8 final size:8
Alignment explanation
Indices: 36320479--36320525 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
36320469 TATATGATTG
36320479 TTTTTTCT
1 TTTTTTCT
36320487 TTTTTT-T
1 TTTTTTCT
*
36320494 TTTTTCCT
1 TTTTTTCT
*
36320502 TTTTTACTAT
1 TTTTT--TCT
36320512 TTTTTTCT
1 TTTTTTCT
36320520 TTTTTT
1 TTTTTT
36320526 TAAATTGCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
7 6 0.19
8 20 0.62
10 6 0.19
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTTCT
Found at i:36320731 original size:21 final size:20
Alignment explanation
Indices: 36320693--36320731 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36320683 TGTTACATAA
*
36320693 ATTTTAAAATTTTTTTTATG
1 ATTTTAAAATTTATTTTATG
*
36320713 ATTTTTAAATATTATTTTA
1 ATTTTAAAAT-TTATTTTA
36320732 CTATTAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
ATTTTAAAATTTATTTTATG
Found at i:36324491 original size:22 final size:22
Alignment explanation
Indices: 36324431--36324494 Score: 92
Period size: 22 Copynumber: 2.9 Consensus size: 22
36324421 GCATAGGGAG
* * *
36324431 GTTCTCAAGTGTGTAAAGCAAC
1 GTTCCCAAGTATGTAACGCAAC
36324453 GTTCCCAAGTATGTAACGCAAC
1 GTTCCCAAGTATGTAACGCAAC
*
36324475 GTTCCTAAGTATGTAACGCA
1 GTTCCCAAGTATGTAACGCA
36324495 TAAAGACGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (22 bp):
GTTCCCAAGTATGTAACGCAAC
Found at i:36324516 original size:26 final size:26
Alignment explanation
Indices: 36324473--36324575 Score: 75
Period size: 26 Copynumber: 3.9 Consensus size: 26
36324463 ATGTAACGCA
36324473 ACGTTCCTAAGT-ATGTAACGCATAAAG
1 ACGTTCC-AAGTGA-GTAACGCATAAAG
* * * * *
36324500 ACGTTTCAAGTGCGTAATGCCTAAGG
1 ACGTTCCAAGTGAGTAACGCATAAAG
* * *
36324526 ACGTTCCCAAATGTGTAACGCATAGCA-
1 ACGTT-CCAAGTGAGTAACGCATA-AAG
*
36324553 ACGTTCCAAGTGAGTAATGCATA
1 ACGTTCCAAGTGAGTAACGCATA
36324576 GTGTCATGAG
Statistics
Matches: 58, Mismatches: 15, Indels: 7
0.73 0.19 0.09
Matches are distributed among these distances:
26 34 0.59
27 24 0.41
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25
Consensus pattern (26 bp):
ACGTTCCAAGTGAGTAACGCATAAAG
Found at i:36328389 original size:18 final size:18
Alignment explanation
Indices: 36328366--36328404 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
36328356 TTATTGTTAA
*
36328366 TGTGGGATGTGCTTATTT
1 TGTGGGATGTGCTAATTT
*
36328384 TGTGGGTTGTGCTAATTT
1 TGTGGGATGTGCTAATTT
36328402 TGT
1 TGT
36328405 TTTGTATAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.10, C:0.05, G:0.33, T:0.51
Consensus pattern (18 bp):
TGTGGGATGTGCTAATTT
Found at i:36330818 original size:2 final size:2
Alignment explanation
Indices: 36330813--36330849 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
36330803 TCTCTCTCTC
36330813 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36330850 TTGGATGTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:36337904 original size:2 final size:2
Alignment explanation
Indices: 36337897--36337925 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
36337887 TGAAAATAAC
36337897 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36337926 ATTAACAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36343112 original size:20 final size:20
Alignment explanation
Indices: 36343075--36343112 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36343065 TAAGAAGCTC
*
36343075 TTAAAAAAATAATTTTTATT
1 TTAAAAAAATAAATTTTATT
36343095 TTAAAAATAA-AAATTTTA
1 TTAAAAA-AATAAATTTTA
36343113 AATAAAGAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 14 0.88
21 2 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAAAAAAATAAATTTTATT
Found at i:36353158 original size:15 final size:16
Alignment explanation
Indices: 36353140--36353178 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
36353130 AATGAAAATG
36353140 AAAAAAAGGAAAAA-A
1 AAAAAAAGGAAAAAGA
*
36353155 AAAAAAGGGAAAAAGA
1 AAAAAAAGGAAAAAGA
36353171 AAGAAAAA
1 AA-AAAAA
36353179 CACACCGGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 3 0.15
17 4 0.20
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAAAAGGAAAAAGA
Found at i:36353159 original size:14 final size:15
Alignment explanation
Indices: 36353140--36353168 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
36353130 AATGAAAATG
36353140 AAAAAAA-GGAAAAA
1 AAAAAAAGGGAAAAA
36353154 AAAAAAAGGGAAAAA
1 AAAAAAAGGGAAAAA
36353169 GAAAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAAAGGGAAAAA
Found at i:36356536 original size:8 final size:8
Alignment explanation
Indices: 36356503--36356544 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
36356493 AGAGCACAAC
*
36356503 AGAGAGAG
1 AGAGACAG
36356511 AGAGACAG
1 AGAGACAG
*
36356519 AAAGACAG
1 AGAGACAG
36356527 AGAGACAG
1 AGAGACAG
*
36356535 AGAGAGAG
1 AGAGACAG
36356543 AG
1 AG
36356545 GCTCACATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.52, C:0.07, G:0.40, T:0.00
Consensus pattern (8 bp):
AGAGACAG
Found at i:36360126 original size:27 final size:25
Alignment explanation
Indices: 36360096--36360168 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 25
36360086 GGAATGACTA
* *
36360096 AGAAAAGAGAAAAAAAGAGTGATTACG
1 AGAAAAAAGAAAAAAAGAG-G-TTAAG
*
36360123 AGAAAAAAAGAAGAAAAAGCGGTTAAG
1 AG-AAAAAAGAA-AAAAAGAGGTTAAG
36360150 AGAAGAAAAGAAAAAAAGA
1 AGAA-AAAAGAAAAAAAGA
36360169 AAGAAAGAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
26 8 0.21
27 15 0.38
28 9 0.23
29 7 0.18
ACGTcount: A:0.66, C:0.03, G:0.25, T:0.07
Consensus pattern (25 bp):
AGAAAAAAGAAAAAAAGAGGTTAAG
Found at i:36360577 original size:22 final size:21
Alignment explanation
Indices: 36360521--36360577 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
36360511 TAGACCCCAA
*
36360521 AAATTTTATAACTTTTATATAT
1 AAATTTTGTAA-TTTTATATAT
* *
36360543 -AACTTTGTTATTTTATATGAT
1 AAATTTTGTAATTTTATAT-AT
36360564 AAATTTTGTAATTT
1 AAATTTTGTAATTT
36360578 ATTAATAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
20 8 0.29
21 9 0.32
22 11 0.39
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (21 bp):
AAATTTTGTAATTTTATATAT
Found at i:36360893 original size:25 final size:27
Alignment explanation
Indices: 36360863--36360921 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 27
36360853 TATGTTAAAT
36360863 TAATATGTC-ATGTC-ATCATCAATTA
1 TAATATGTCAATGTCAATCATCAATTA
36360888 TAATATGTCAGTATGTCATATCATCAATTA
1 TAATATGTCA--ATGTCA-ATCATCAATTA
36360918 TAAT
1 TAAT
36360922 CTATTAGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
25 9 0.31
28 5 0.17
30 15 0.52
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (27 bp):
TAATATGTCAATGTCAATCATCAATTA
Found at i:36362997 original size:11 final size:11
Alignment explanation
Indices: 36362981--36363020 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
36362971 GATCATAGGA
36362981 TCTTTTTTTCT
1 TCTTTTTTTCT
*
36362992 TCTTTTTTCCT
1 TCTTTTTTTCT
36363003 TCTTTTCTTTCT
1 TCTTTT-TTTCT
36363015 T-TTTTT
1 TCTTTTT
36363021 CTCCCCCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 1 0.04
11 20 0.77
12 5 0.19
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TCTTTTTTTCT
Found at i:36375914 original size:17 final size:17
Alignment explanation
Indices: 36375892--36375931 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
36375882 TTGAATTTTG
** *
36375892 ACCCATTTGGTTTATGA
1 ACCCATTTGAATTATAA
36375909 ACCCATTTGAATTATAA
1 ACCCATTTGAATTATAA
36375926 ACCCAT
1 ACCCAT
36375932 CATTCCTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.35
Consensus pattern (17 bp):
ACCCATTTGAATTATAA
Found at i:36376557 original size:53 final size:52
Alignment explanation
Indices: 36376387--36376579 Score: 206
Period size: 53 Copynumber: 3.7 Consensus size: 52
36376377 CAACTTAAAA
* * * *
36376387 ATCCCTCTATCGAGGCTCCAATATCTTAAGAATTCTTCTACTGAGGATCAAT
1 ATCCCTCCATCGAGGTTCCAATATCTTAAGAATTCTTCCACCGAGGATCAAT
* * * * * *
36376439 ATCCCTCCACCAAGGTTCTAATATCTTAATAATCCTTTCACCGAGGATCTAAT
1 ATCCCTCCATCGAGGTTCCAATATCTTAAGAATTCTTCCACCGAGGATC-AAT
* * ** *
36376492 ATTCTTCCATCGAGGTTATAATATCTTAAGAATTCTTCCACCGAGGTTCGAAT
1 ATCCCTCCATCGAGGTTCCAATATCTTAAGAATTCTTCCACCGAGGATC-AAT
* * *
36376545 ATCCCTCAATCGAGATTCCAATGTCTTAAGAATTC
1 ATCCCTCCATCGAGGTTCCAATATCTTAAGAATTC
36376580 CTTTATTAAG
Statistics
Matches: 113, Mismatches: 27, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
52 39 0.35
53 74 0.65
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (52 bp):
ATCCCTCCATCGAGGTTCCAATATCTTAAGAATTCTTCCACCGAGGATCAAT
Found at i:36376599 original size:106 final size:105
Alignment explanation
Indices: 36376406--36376599 Score: 228
Period size: 106 Copynumber: 1.8 Consensus size: 105
36376396 TCGAGGCTCC
* * * * * *
36376406 AATATCTTAAGAATTCTTCTACTGAGGATCAATATCCCTCCACCAAGGTTCTAATATCTTAATAA
1 AATATCTTAAGAATTCTTCCACCGAGGATCAATATCCCTCAACCAAGATTCCAATATCTTAAGAA
* **
36376471 TCCTTTCACCGAGGATCTAATATTCTTCCATCGAGGTTAT
66 TCCTTTCACCAAGGATAAAATATTCTTCCATCGAGGTTAT
* * * *
36376511 AATATCTTAAGAATTCTTCCACCGAGGTTCGAATATCCCTCAATCGAGATTCCAATGTCTTAAGA
1 AATATCTTAAGAATTCTTCCACCGAGGATC-AATATCCCTCAACCAAGATTCCAATATCTTAAGA
**
36376576 ATTCCTTT-ATTAAGGATAAAATAT
65 A-TCCTTTCACCAAGGATAAAATAT
36376600 CTTTAGAATT
Statistics
Matches: 72, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
105 27 0.38
106 39 0.54
107 6 0.08
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (105 bp):
AATATCTTAAGAATTCTTCCACCGAGGATCAATATCCCTCAACCAAGATTCCAATATCTTAAGAA
TCCTTTCACCAAGGATAAAATATTCTTCCATCGAGGTTAT
Found at i:36381676 original size:59 final size:59
Alignment explanation
Indices: 36381460--36381816 Score: 353
Period size: 59 Copynumber: 6.0 Consensus size: 59
36381450 AGTTTGATTG
* * **
36381460 AAATTCTTAGACTTGATCTAGGCTCGACCTATCTTAAAACAGGTTCAATTTAAAAAAAAA
1 AAATTCTTAGACTTGATCTAGGCTCGACCTATCTCAAAACAGGTTCGA-TTAAAAAAGTA
* * * **
36381520 ATTGACATTCCTAGACTTGATCTAGGCTTGACCTATCTTAAAACAGGTTCGAATTAAAATTG-A
1 A---A-ATTCTTAGACTTGATCTAGGCTCGACCTATCTCAAAACAGGTTCG-ATTAAAAAAGTA
* * * * *
36381583 AATTTC-TAGACTTAATATAGGCTCGACCTATCTCAAAACAAGTTCGATTAAAAGAGTA
1 AAATTCTTAGACTTGATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTAAAAAAGTA
* * * * * * *
36381641 AAATTCTTAGACTTGATCTAAGCTCAACCTTTCTCACAACAGGTTTGATTAAAAAATTG
1 AAATTCTTAGACTTGATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTAAAAAAGTA
* * * * * *
36381700 AAATT-TCTAGACTTGATCTAGGCTTGACTTATCTCACAACAGGTTCGATTAAAAGATTG
1 AAATTCT-TAGACTTGATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTAAAAAAGTA
* *
36381759 AAATT-TCTAGACTTGATCTAGGCTCGACCTATCTTAAAACAGGTTCGATTTAAAAAGT
1 AAATTCT-TAGACTTGATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTAAAAAAGT
36381817 CTAATGTCAA
Statistics
Matches: 249, Mismatches: 40, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
57 8 0.03
58 42 0.17
59 145 0.58
60 2 0.01
63 3 0.01
64 48 0.19
65 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (59 bp):
AAATTCTTAGACTTGATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTAAAAAAGTA
Found at i:36381722 original size:118 final size:117
Alignment explanation
Indices: 36381456--36381814 Score: 418
Period size: 118 Copynumber: 3.0 Consensus size: 117
36381446 GACAAGTTTG
* * * *
36381456 ATTGAAA-TTCTTAGACTTGATCTAGGCTCGACCTATCTTAAAACAGGTTCAATTTAAAAAAAAA
1 ATTGAAATTTC-TAGACTTGATCTAGGCTCGACCTATCTCAAAACAGGTTCGA-TTAAAAGAATA
* *
36381520 ATTGACATTCCTAGACTTGATCTAGGCTTGACCTATCTTAAAACAGGTTCGAATT-AAA
64 A---A-ATTCTTAGACTTGATCTAGGCTCGACCTATCTTAAAACAGGTTCG-ATTAAAA
* * * *
36381578 ATTGAAATTTCTAGACTTAATATAGGCTCGACCTATCTCAAAACAAGTTCGATTAAAAGAGTAAA
1 ATTGAAATTTCTAGACTTGATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTAAAAGAATAAA
* * * * * *
36381643 ATTCTTAGACTTGATCTAAGCTCAACCTTTCTCACAACAGGTTTGATTAAAAA
66 ATTCTTAGACTTGATCTAGGCTCGACCTATCTTAAAACAGGTTCGATT-AAAA
* * * * *
36381696 ATTGAAATTTCTAGACTTGATCTAGGCTTGACTTATCTCACAACAGGTTCGATTAAAAGATTGAA
1 ATTGAAATTTCTAGACTTGATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTAAAAGAATAAA
36381761 ATT-TCTAGACTTGATCTAGGCTCGACCTATCTTAAAACAGGTTCGATTTAAAA
66 ATTCT-TAGACTTGATCTAGGCTCGACCTATCTTAAAACAGGTTCGA-TTAAAA
36381814 A
1 A
36381815 GTCTAATGTC
Statistics
Matches: 202, Mismatches: 30, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
116 3 0.01
117 38 0.19
118 104 0.51
119 2 0.01
121 9 0.04
122 43 0.21
123 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.32
Consensus pattern (117 bp):
ATTGAAATTTCTAGACTTGATCTAGGCTCGACCTATCTCAAAACAGGTTCGATTAAAAGAATAAA
ATTCTTAGACTTGATCTAGGCTCGACCTATCTTAAAACAGGTTCGATTAAAA
Found at i:36392291 original size:13 final size:13
Alignment explanation
Indices: 36392270--36392307 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
36392260 ATACTTTTCC
36392270 TATATGCAAAA-G
1 TATATGCAAAATG
36392282 TATGATGCAAATATG
1 TAT-ATGCAAA-ATG
36392297 TATATGCAAAA
1 TATATGCAAAA
36392308 ATGGCAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 3 0.13
13 8 0.35
14 8 0.35
15 4 0.17
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (13 bp):
TATATGCAAAATG
Found at i:36393747 original size:3 final size:3
Alignment explanation
Indices: 36393693--36393730 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
36393683 GTTTACATAT
* *
36393693 TTA TTA TTA TTA TTA TTA TTT TTG TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
36393731 TATATATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:36394338 original size:13 final size:13
Alignment explanation
Indices: 36394320--36394344 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36394310 TTACCATTCC
36394320 CTCTTCACTTTCA
1 CTCTTCACTTTCA
36394333 CTCTTCACTTTC
1 CTCTTCACTTTC
36394345 TGTCTCTAGT
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:0.12, C:0.40, G:0.00, T:0.48
Consensus pattern (13 bp):
CTCTTCACTTTCA
Found at i:36398757 original size:2 final size:2
Alignment explanation
Indices: 36398746--36398789 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
36398736 ATATGTGTGC
*
36398746 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36398788 AT
1 AT
36398790 TGGATAAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36401824 original size:2 final size:2
Alignment explanation
Indices: 36401817--36401862 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
36401807 ATGAAGGATT
36401817 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36401859 TA TA
1 TA TA
36401863 NNNNNNNNNN
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36408119 original size:22 final size:23
Alignment explanation
Indices: 36408094--36408140 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
36408084 TACCTGGTTC
36408094 TCCTAGTTTTGC-TCAACGTTTA
1 TCCTAGTTTTGCTTCAACGTTTA
*
36408116 TCCTGGTTTTGCTTCAACGTTTA
1 TCCTAGTTTTGCTTCAACGTTTA
36408139 TC
1 TC
36408141 TGACTTAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.15, C:0.23, G:0.15, T:0.47
Consensus pattern (23 bp):
TCCTAGTTTTGCTTCAACGTTTA
Found at i:36412083 original size:2 final size:2
Alignment explanation
Indices: 36412076--36412102 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36412066 TAGAAGACAT
36412076 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
36412103 GAGATTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36413996 original size:19 final size:19
Alignment explanation
Indices: 36413974--36414023 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
36413964 TTGTAGGGAC
36413974 AAAATTATAAAAC-TCTAAA
1 AAAATTATAAAACGT-TAAA
*
36413993 AAAATCA-AAATACGTTAAA
1 AAAATTATAAA-ACGTTAAA
*
36414012 AAAATTTTAAAA
1 AAAATTATAAAA
36414024 TTTTTATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
18 3 0.12
19 18 0.72
20 4 0.16
ACGTcount: A:0.64, C:0.08, G:0.02, T:0.26
Consensus pattern (19 bp):
AAAATTATAAAACGTTAAA
Found at i:36415978 original size:54 final size:54
Alignment explanation
Indices: 36415912--36416017 Score: 167
Period size: 54 Copynumber: 2.0 Consensus size: 54
36415902 TCTCTCTTAA
*
36415912 CTCTCTGAACTGTCTCAACTCTGTCAACTCTCTATTGAGCACCATCGTCATCAG
1 CTCTCTGAACTGTATCAACTCTGTCAACTCTCTATTGAGCACCATCGTCATCAG
* * * *
36415966 CTCTCTGAACTGTATGATCTCTGTCAACTCTTTGTTGAGCACCATCGTCATC
1 CTCTCTGAACTGTATCAACTCTGTCAACTCTCTATTGAGCACCATCGTCATC
36416018 GGGCTGTGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.34
Consensus pattern (54 bp):
CTCTCTGAACTGTATCAACTCTGTCAACTCTCTATTGAGCACCATCGTCATCAG
Found at i:36416403 original size:31 final size:31
Alignment explanation
Indices: 36416367--36416474 Score: 171
Period size: 31 Copynumber: 3.5 Consensus size: 31
36416357 GTGTCAACTA
* * * *
36416367 GGCGTGTTACTATAGTTTACGTTATATGCAT
1 GGCGTGTTACCACATTTTACGTTACATGCAT
36416398 GGCGTGTTACCACATTTTACGTTACATGCAT
1 GGCGTGTTACCACATTTTACGTTACATGCAT
*
36416429 GGCGTGTTACCACATTTTACATTACATGCAT
1 GGCGTGTTACCACATTTTACGTTACATGCAT
36416460 GGCGTGTTACCACAT
1 GGCGTGTTACCACAT
36416475 GACTAACAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (31 bp):
GGCGTGTTACCACATTTTACGTTACATGCAT
Found at i:36418713 original size:24 final size:24
Alignment explanation
Indices: 36418683--36418900 Score: 240
Period size: 24 Copynumber: 9.1 Consensus size: 24
36418673 TGTTTTCACT
36418683 ATGTACAGAAACATGTGACACGTC
1 ATGTACAGAAACATGTGACACGTC
* *
36418707 ATATACAGAAATATGTGACACGTC
1 ATGTACAGAAACATGTGACACGTC
* *
36418731 ATGTAAAGGAACATGTGACACGTC
1 ATGTACAGAAACATGTGACACGTC
*
36418755 ATGTACAAAAACATGTGACACGTC
1 ATGTACAGAAACATGTGACACGTC
* *
36418779 ATGTACAAAAACATGTGACACGCC
1 ATGTACAGAAACATGTGACACGTC
* * *
36418803 ATATACAGAAACATGTGGCACGCC
1 ATGTACAGAAACATGTGACACGTC
* * **
36418827 ATGTAAAGGAACATGTGACACACC
1 ATGTACAGAAACATGTGACACGTC
* * **
36418851 ATATACATAAACATGTGACACACC
1 ATGTACAGAAACATGTGACACGTC
* * *
36418875 ATGTACA-AAAAATGTAACAAGTC
1 ATGTACAGAAACATGTGACACGTC
36418898 ATG
1 ATG
36418901 GTTAGATTGT
Statistics
Matches: 166, Mismatches: 28, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
23 14 0.08
24 152 0.92
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (24 bp):
ATGTACAGAAACATGTGACACGTC
Found at i:36419023 original size:31 final size:29
Alignment explanation
Indices: 36418988--36419082 Score: 104
Period size: 29 Copynumber: 3.3 Consensus size: 29
36418978 TTAAAAGAAG
*
36418988 TTGTTACATGCCATGTTGAAAAAAAATATTA
1 TTGTTACATGCCATATTG--AAAAAATATTA
* * *
36419019 TTGTTACACGCTATATTGAAAAAATATTG
1 TTGTTACATGCCATATTGAAAAAATATTA
* *
36419048 TTGTTACATGACATATT-CAAAAATATT-
1 TTGTTACATGCCATATTGAAAAAATATTA
36419075 TTGTTACA
1 TTGTTACA
36419083 CTTTAATGCT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
27 8 0.14
28 9 0.16
29 24 0.43
31 15 0.27
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.39
Consensus pattern (29 bp):
TTGTTACATGCCATATTGAAAAAATATTA
Found at i:36429162 original size:11 final size:12
Alignment explanation
Indices: 36429135--36429167 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
36429125 CTTCTTGTAT
*
36429135 TTATTATTGTCA
1 TTATTATTATCA
36429147 TTATTATTAT-A
1 TTATTATTATCA
36429158 TTATTATTAT
1 TTATTATTAT
36429168 TTTTTGTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (12 bp):
TTATTATTATCA
Found at i:36431064 original size:16 final size:16
Alignment explanation
Indices: 36431043--36431083 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
36431033 AAGAAACGGG
*
36431043 AAAGAAAATAAAAACA
1 AAAGAAAAAAAAAACA
36431059 AAAGAAAAAAAAAACA
1 AAAGAAAAAAAAAACA
*
36431075 AAGGAAAAA
1 AAAGAAAAA
36431084 TGAAAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.83, C:0.05, G:0.10, T:0.02
Consensus pattern (16 bp):
AAAGAAAAAAAAAACA
Found at i:36431077 original size:15 final size:15
Alignment explanation
Indices: 36431043--36431096 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
36431033 AAGAAACGGG
*
36431043 AAAGAAAATAAAAAC
1 AAAGAAAAAAAAAAC
36431058 AAAAGAAAAAAAAAAC
1 -AAAGAAAAAAAAAAC
**
36431074 AAAGGAAAAATGAAA-
1 AAA-GAAAAAAAAAAC
36431089 AAAGAAAA
1 AAAGAAAA
36431097 CATGGGGGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.15
15 6 0.18
16 23 0.68
ACGTcount: A:0.81, C:0.04, G:0.11, T:0.04
Consensus pattern (15 bp):
AAAGAAAAAAAAAAC
Found at i:36431548 original size:2 final size:2
Alignment explanation
Indices: 36431527--36431581 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
36431517 AATATTTAGC
* *
36431527 TA TA TA -A TA TC TA TA CA 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
36431568 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
36431582 AAGATGAAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:36442240 original size:18 final size:18
Alignment explanation
Indices: 36442217--36442254 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
36442207 CCTGTTATAC
*
36442217 TTGTTATTATTATCATTA
1 TTGTTATTATGATCATTA
*
36442235 TTGTTATTATGATTATTA
1 TTGTTATTATGATCATTA
36442253 TT
1 TT
36442255 TTCATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.63
Consensus pattern (18 bp):
TTGTTATTATGATCATTA
Found at i:36442268 original size:15 final size:15
Alignment explanation
Indices: 36442250--36442283 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
36442240 ATTATGATTA
36442250 TTATTTTCATTT-TTT
1 TTATTTTC-TTTGTTT
36442265 TTATTTTCTTTGTTT
1 TTATTTTCTTTGTTT
36442280 TTAT
1 TTAT
36442284 GTTTTGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.17
15 15 0.83
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.79
Consensus pattern (15 bp):
TTATTTTCTTTGTTT
Found at i:36448904 original size:45 final size:45
Alignment explanation
Indices: 36448843--36448936 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 45
36448833 ATTAAATTTA
* * * *
36448843 AATAATACTAAATAATATTCTTTGTTACATTTATTATATTCAAAT
1 AATAATACTAAATAATATGCTTTATAACATTTATTATAGTCAAAT
* * * *
36448888 AATAATATTAAGTAATATGCTTTATAATATTTATTATAGTGAAAT
1 AATAATACTAAATAATATGCTTTATAACATTTATTATAGTCAAAT
36448933 AATA
1 AATA
36448937 TTAATATATT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (45 bp):
AATAATACTAAATAATATGCTTTATAACATTTATTATAGTCAAAT
Found at i:36449825 original size:3 final size:3
Alignment explanation
Indices: 36449813--36449860 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
36449803 AAATATATAT
* *
36449813 ATA A-A ATA ATA ATA ATA ACA AAA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
36449860 A
1 A
36449861 ATATGTAAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:36454884 original size:3 final size:3
Alignment explanation
Indices: 36454876--36454910 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
36454866 ATATATAAAA
* *
36454876 AAT AAT AAT AAT AAC AAA AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
36454911 ATATGTAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:36454894 original size:18 final size:18
Alignment explanation
Indices: 36454873--36454907 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
36454863 AAGATATATA
36454873 AAAAATAATAATAATAAC
1 AAAAATAATAATAATAAC
36454891 AAAAATAATAATAATAA
1 AAAAATAATAATAATAA
36454908 TAAATATGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAATAATAATAATAAC
Found at i:36455895 original size:16 final size:16
Alignment explanation
Indices: 36455882--36455913 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
36455872 TAATTTTTAG
36455882 GTTCCAATCATTTTGA
1 GTTCCAATCATTTTGA
*
36455898 GTTCTAATCATTTTGA
1 GTTCCAATCATTTTGA
36455914 TTTAGGTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (16 bp):
GTTCCAATCATTTTGA
Found at i:36462229 original size:21 final size:21
Alignment explanation
Indices: 36462205--36462269 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
36462195 TTGCACTTAA
36462205 ATATTTAATTTAATAATAGAT
1 ATATTTAATTTAATAATAGAT
* * *
36462226 ATATGTATATTGCACT--TA-A-
1 ATATTTA-ATT-TAATAATAGAT
36462245 ATATTTAATTTAATAATAGAT
1 ATATTTAATTTAATAATAGAT
36462266 ATAT
1 ATAT
36462270 GTATATGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
17 2 0.06
18 3 0.09
19 8 0.25
20 2 0.06
21 12 0.38
22 3 0.09
23 2 0.06
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (21 bp):
ATATTTAATTTAATAATAGAT
Found at i:36462249 original size:40 final size:40
Alignment explanation
Indices: 36462194--36462275 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
36462184 AATTTGGTAA
36462194 ATTGCACTTAAATATTTAATTTAATAATAGATATATGTAT
1 ATTGCACTTAAATATTTAATTTAATAATAGATATATGTAT
36462234 ATTGCACTTAAATATTTAATTTAATAATAGATATATGTAT
1 ATTGCACTTAAATATTTAATTTAATAATAGATATATGTAT
36462274 AT
1 AT
36462276 GTGTATCTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (40 bp):
ATTGCACTTAAATATTTAATTTAATAATAGATATATGTAT
Found at i:36464331 original size:67 final size:67
Alignment explanation
Indices: 36464252--36464388 Score: 274
Period size: 67 Copynumber: 2.0 Consensus size: 67
36464242 ACGTGTTCAA
36464252 GTCTTTAATTCTACTTATGAAATTTATAAGATAAATTTCCTTTATAAATGTGTTAGCAATAGCTC
1 GTCTTTAATTCTACTTATGAAATTTATAAGATAAATTTCCTTTATAAATGTGTTAGCAATAGCTC
36464317 CC
66 CC
36464319 GTCTTTAATTCTACTTATGAAATTTATAAGATAAATTTCCTTTATAAATGTGTTAGCAATAGCTC
1 GTCTTTAATTCTACTTATGAAATTTATAAGATAAATTTCCTTTATAAATGTGTTAGCAATAGCTC
36464384 CC
66 CC
36464386 GTC
1 GTC
36464389 GTGATCATGG
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (67 bp):
GTCTTTAATTCTACTTATGAAATTTATAAGATAAATTTCCTTTATAAATGTGTTAGCAATAGCTC
CC
Found at i:36465245 original size:2 final size:2
Alignment explanation
Indices: 36465238--36465264 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36465228 AAATAAAATA
36465238 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
36465265 ATTATTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36467034 original size:25 final size:26
Alignment explanation
Indices: 36467000--36467049 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
36466990 TCCAACTTTT
36467000 AATAAAATATTAATA-TTAAATTATA
1 AATAAAATATTAATATTTAAATTATA
36467025 AATAAAATATTAATATTTAAATTAT
1 AATAAAATATTAATATTTAAATTAT
36467050 CAATTATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
AATAAAATATTAATATTTAAATTATA
Found at i:36467263 original size:23 final size:23
Alignment explanation
Indices: 36467233--36467294 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
36467223 TTAATCATAA
*
36467233 TAATATTTAAATTAAATAAATGT
1 TAATATTTAAATTAAATAAATAT
* * *
36467256 TAATATTTAAA-TGATTAATTAT
1 TAATATTTAAATTAAATAAATAT
*
36467278 TAATATTTTAATTAAAT
1 TAATATTTAAATTAAAT
36467295 TCTAGATTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
22 17 0.55
23 14 0.45
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (23 bp):
TAATATTTAAATTAAATAAATAT
Found at i:36467287 original size:108 final size:108
Alignment explanation
Indices: 36467000--36467329 Score: 316
Period size: 108 Copynumber: 3.0 Consensus size: 108
36466990 TCCAACTTTT
* *
36467000 AATAAA-ATATTAATA-TTAAATTATAAATAAAATATTAATATTTAAATTATCAATTATTAATA-
1 AATAAACATAATAATATTTAAA-T-TAAAT-AAATATTAATATTTAAATCATCAATTATTAATAT
* ** *
36467062 ---AAATAAATTATAAATTATTCCTATTTAAAAACAAAATAAATTAAAAATA
63 TTTAAATAAATTACAAATTATTAATATTT---AA-AAAATAAAAT-AAAA-A
* *
36467111 AATAAACATAAT-ATCATTTAAATTAGATAAACAATATTAATAATTAAATCATCAATTATTAATA
1 AATAAACATAATAAT-ATTTAAATTA-A-ATA-AATATTAATATTTAAATCATCAATTATTAATA
*
36467175 TTTTAAATAAATTACCAATTATTAATATTTAAAAAATAAAATAAAAA
62 TTTTAAATAAATTACAAATTATTAATATTTAAAAAATAAAATAAAAA
* * * * *
36467222 ATTAATCATAATAATATTTAAATTAAATAAATGTTAATATTTAAATGATTAATTATTAATATTTT
1 AATAAACATAATAATATTTAAATTAAATAAATATTAATATTTAAATCATCAATTATTAATATTTT
* * **
36467287 AATTAAATT-CTAGATTATTAATATTTAAAAAATCTAATAAAAA
66 AAATAAATTAC-AAATTATTAATATTTAAAAAATAAAATAAAAA
36467330 TAAAATGTCA
Statistics
Matches: 186, Mismatches: 21, Indels: 27
0.79 0.09 0.12
Matches are distributed among these distances:
107 1 0.01
108 68 0.37
109 2 0.01
110 1 0.01
111 31 0.17
112 14 0.08
113 45 0.24
114 2 0.01
117 22 0.12
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (108 bp):
AATAAACATAATAATATTTAAATTAAATAAATATTAATATTTAAATCATCAATTATTAATATTTT
AAATAAATTACAAATTATTAATATTTAAAAAATAAAATAAAAA
Done.