Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 199 of 213
Found at i:59575290 original size:23 final size:22
Alignment explanation
Indices: 59575262--59575304 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
59575252 AAATAAACTT
59575262 AAAATAAAAAATATTATATTTTA
1 AAAATAAAAAATA-TATATTTTA
59575285 AAAATAAAAAATATATATTT
1 AAAATAAAAAATATATATTT
59575305 AATATTTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAATAAAAAATATATATTTTA
Found at i:59575794 original size:29 final size:29
Alignment explanation
Indices: 59575752--59575814 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
59575742 GCCATTGATG
59575752 AAAATATAAAAAAATTAAAATTATTTTTAA
1 AAAATATAAAAAAATTAAAATTA-TTTTAA
*
59575782 AAAATAT-AAAAAATTTAAATTATTTTAA
1 AAAATATAAAAAAATTAAAATTATTTTAA
59575810 AAAAT
1 AAAAT
59575815 GAAATTGAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 11 0.34
29 14 0.44
30 7 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAATATAAAAAAATTAAAATTATTTTAA
Found at i:59575797 original size:20 final size:20
Alignment explanation
Indices: 59575760--59575797 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
59575750 TGAAAATATA
*
59575760 AAAAAATTAAAATTATTTTT
1 AAAAAATTAAAATAATTTTT
59575780 AAAAAATATAAAA-AATTT
1 AAAAAAT-TAAAATAATTT
59575798 AAATTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAAATTAAAATAATTTTT
Found at i:59575925 original size:12 final size:12
Alignment explanation
Indices: 59575908--59575932 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59575898 TTTGAGAGAG
59575908 TTGGAAGGAAAT
1 TTGGAAGGAAAT
59575920 TTGGAAGGAAAT
1 TTGGAAGGAAAT
59575932 T
1 T
59575933 GAGAGGATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.32, T:0.28
Consensus pattern (12 bp):
TTGGAAGGAAAT
Found at i:59577559 original size:9 final size:9
Alignment explanation
Indices: 59577545--59577569 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
59577535 TATAGTTTGA
59577545 TATTCGAAT
1 TATTCGAAT
59577554 TATTCGAAT
1 TATTCGAAT
59577563 TATTCGA
1 TATTCGA
59577570 GTTAAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (9 bp):
TATTCGAAT
Found at i:59577579 original size:14 final size:14
Alignment explanation
Indices: 59577560--59577586 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
59577550 GAATTATTCG
59577560 AATTATTCGAGTTA
1 AATTATTCGAGTTA
59577574 AATTATTCGAGTT
1 AATTATTCGAGTT
59577587 TTGCTCACCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (14 bp):
AATTATTCGAGTTA
Found at i:59577912 original size:20 final size:21
Alignment explanation
Indices: 59577887--59577950 Score: 71
Period size: 22 Copynumber: 3.1 Consensus size: 21
59577877 AAATATAAAA
*
59577887 TTTGAAATTTTTATAAA-TAT
1 TTTGAAATTTTTAAAAATTAT
59577907 TTTG-AA-TTTTAAAAATTAT
1 TTTGAAATTTTTAAAAATTAT
* *
59577926 TTTTAACTTTTTAGAAAATTAT
1 TTTGAAATTTTTA-AAAATTAT
59577948 TTT
1 TTT
59577951 TATTTTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 8 0.22
19 8 0.22
20 5 0.14
21 5 0.14
22 11 0.30
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTGAAATTTTTAAAAATTAT
Found at i:59577964 original size:19 final size:19
Alignment explanation
Indices: 59577894--59577964 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 19
59577884 AAATTTGAAA
* *
59577894 TTTTTATAAA-TATTTTGAA
1 TTTTTA-AAATTATTTTTAT
*
59577913 TTTTAAAAATTATTTTTAACT
1 TTTTTAAAATTATTTTT-A-T
*
59577934 TTTTAGAAAATTATTTTTAT
1 TTTT-TAAAATTATTTTTAT
*
59577954 TTTTTATAATT
1 TTTTTAAAATT
59577965 TTTGTTGAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
18 3 0.07
19 16 0.38
20 6 0.14
21 5 0.12
22 12 0.29
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (19 bp):
TTTTTAAAATTATTTTTAT
Found at i:59580807 original size:102 final size:102
Alignment explanation
Indices: 59580631--59580828 Score: 387
Period size: 102 Copynumber: 1.9 Consensus size: 102
59580621 AAGGAGACCG
59580631 GAGTCGAGAGTTACACGGATATCTAACAAGAAGATGGGTACGGCTTTGGTTGGGAATCTTGGTAT
1 GAGTCGAGAGTTACACGGATATCTAACAAGAAGATGGGTACGGCTTTGGTTGGGAATCTTGGTAT
59580696 AGTTGCTGGCCACTAAGAGTTTGAGGTGTCAGAACCA
66 AGTTGCTGGCCACTAAGAGTTTGAGGTGTCAGAACCA
59580733 GAGTCGAGAGTTACACGGATATCTAACAAGAAGATGGGTACGGCTTTGGTTGGGAATCTTGGTAT
1 GAGTCGAGAGTTACACGGATATCTAACAAGAAGATGGGTACGGCTTTGGTTGGGAATCTTGGTAT
*
59580798 AGTTGCTGGCTACTAAGAGTTTGAGGTGTCA
66 AGTTGCTGGCCACTAAGAGTTTGAGGTGTCA
59580829 AATGCATTCT
Statistics
Matches: 95, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 95 1.00
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.28
Consensus pattern (102 bp):
GAGTCGAGAGTTACACGGATATCTAACAAGAAGATGGGTACGGCTTTGGTTGGGAATCTTGGTAT
AGTTGCTGGCCACTAAGAGTTTGAGGTGTCAGAACCA
Found at i:59582133 original size:23 final size:24
Alignment explanation
Indices: 59582107--59582160 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
59582097 AAATAGTTAA
59582107 ATATATATA-ACTATTAATA-TATC
1 ATATATATATACTATT-ATAGTATC
* *
59582130 ATATAT-TATAGTATTATAGTATT
1 ATATATATATACTATTATAGTATC
59582153 ATATATAT
1 ATATATAT
59582161 TGATATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 5 0.19
23 20 0.77
24 1 0.04
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (24 bp):
ATATATATATACTATTATAGTATC
Found at i:59585059 original size:41 final size:41
Alignment explanation
Indices: 59585002--59585082 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
59584992 AAATTTTTAG
*
59585002 ACTTAAAGTCTAGCAGGTTTAAGGCCGGTGATATAATTCAA
1 ACTTAAAGTCTAGCAGGCTTAAGGCCGGTGATATAATTCAA
*
59585043 ACTTAAAGTCTAGCAGGCTTAAGGTCGGTGATATAATTCA
1 ACTTAAAGTCTAGCAGGCTTAAGGCCGGTGATATAATTCA
59585083 GAAGGCTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (41 bp):
ACTTAAAGTCTAGCAGGCTTAAGGCCGGTGATATAATTCAA
Found at i:59585100 original size:28 final size:28
Alignment explanation
Indices: 59585057--59585111 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
59585047 AAAGTCTAGC
59585057 AGGCTTAAGGTCGGTGATATAATTCAGA
1 AGGCTTAAGGTCGGTGATATAATTCAGA
59585085 AGGCTTAAGG-CTGGTGATATAATTCAG
1 AGGCTTAAGGTC-GGTGATATAATTCAG
59585112 CCTTAAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.31, C:0.11, G:0.29, T:0.29
Consensus pattern (28 bp):
AGGCTTAAGGTCGGTGATATAATTCAGA
Found at i:59585131 original size:69 final size:69
Alignment explanation
Indices: 59585020--59585153 Score: 223
Period size: 69 Copynumber: 1.9 Consensus size: 69
59585010 TCTAGCAGGT
* *
59585020 TTAAGGCCGGTGATATAATTCAAACTTAAAGTCTAGCAGGCTTAAGGTCGGTGATATAATTCAGA
1 TTAAGGCCGGTGATATAATTCAAACTTAAAATCTAGCAGGCTTAAGGCCGGTGATATAATTCAGA
59585085 AGGC
66 AGGC
* **
59585089 TTAAGGCTGGTGATATAATTCAGCCTTAAAATCTAGCAGGCTTAAGGCCGGTGATATAATTCAGA
1 TTAAGGCCGGTGATATAATTCAAACTTAAAATCTAGCAGGCTTAAGGCCGGTGATATAATTCAGA
59585154 CTTAAAGTCC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (69 bp):
TTAAGGCCGGTGATATAATTCAAACTTAAAATCTAGCAGGCTTAAGGCCGGTGATATAATTCAGA
AGGC
Found at i:59585203 original size:41 final size:41
Alignment explanation
Indices: 59585085--59585212 Score: 157
Period size: 41 Copynumber: 3.1 Consensus size: 41
59585075 ATAATTCAGA
* * * *
59585085 AGGCTTAAGGCTGGTGATATAATTCAGCCTTAAAATCTAGC
1 AGGCTTAAGGCCGGTGATATAATTCAGACTTAAAGTCCAGC
*
59585126 AGGCTTAAGGCCGGTGATATAATTCAGACTTAAAGTCCAGT
1 AGGCTTAAGGCCGGTGATATAATTCAGACTTAAAGTCCAGC
* * * * * *
59585167 AGGTTTAAGGCCGGTGAAATAATTCGGACTTTAAGTCTAAC
1 AGGCTTAAGGCCGGTGATATAATTCAGACTTAAAGTCCAGC
59585208 AGGCT
1 AGGCT
59585213 AATTGTTGGT
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (41 bp):
AGGCTTAAGGCCGGTGATATAATTCAGACTTAAAGTCCAGC
Found at i:59596349 original size:2 final size:2
Alignment explanation
Indices: 59596342--59596383 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
59596332 TGAATATGTA
59596342 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
59596384 ATGGTAATGA
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:59598742 original size:46 final size:46
Alignment explanation
Indices: 59598675--59598927 Score: 433
Period size: 46 Copynumber: 5.6 Consensus size: 46
59598665 TTTGAGTACT
*
59598675 TCTGATCAAGTGACAAAGTGATGAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
59598721 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
59598767 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-TCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
59598812 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
59598858 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
59598903 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
59598928 ATCATACGTA
Statistics
Matches: 199, Mismatches: 7, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
43 12 0.06
44 5 0.03
45 62 0.31
46 120 0.60
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:59598831 original size:91 final size:91
Alignment explanation
Indices: 59598675--59598927 Score: 438
Period size: 91 Copynumber: 2.8 Consensus size: 91
59598665 TTTGAGTACT
* *
59598675 TCTGATCAAGTGACAAAGTGATGAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TCTAGCTACACTTATCTGATCAAGTGACAAAGT
59598740 GATAAGTGGTAGCTTTAGCTACACTTA
65 GATAAGTGGTAGCTTTAGCTACACTTA
*
59598767 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGTCTAGCTACACTTATCTGATCAAGTGACAAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTCTAGCTACACTTATCTGATCAAGTGACAAAGTG
59598832 ATAAGTGGTAGCTTTAGCTACACTTA
66 ATAAGTGGTAGCTTTAGCTACACTTA
* *
59598858 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AGGGAC-AAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTCTAGCTACACTTATCTGATCAAGTGACAAAGTG
59598921 ATAAGTG
66 ATAAGTG
59598928 ATCATACGTA
Statistics
Matches: 155, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
89 12 0.08
90 5 0.03
91 109 0.70
92 29 0.19
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (91 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTCTAGCTACACTTATCTGATCAAGTGACAAAGTG
ATAAGTGGTAGCTTTAGCTACACTTA
Found at i:59598878 original size:137 final size:134
Alignment explanation
Indices: 59598675--59598927 Score: 443
Period size: 137 Copynumber: 1.9 Consensus size: 134
59598665 TTTGAGTACT
*
59598675 TCTGATCAAGTGACAAAGTGATGAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
*
59598740 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGTCTAGCT
66 GATAAGTGGTAGC-CTAGCTACACTTATCTGATC-AG-GAAAAAGTGATAAGTGGTAGTCTAGCT
59598805 ACACTTA
128 ACACTTA
59598812 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
* *
59598877 GATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGGACAAGTGATAAGTG
66 GATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGAAAAAGTGATAAGTG
59598928 ATCATACGTA
Statistics
Matches: 112, Mismatches: 4, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
134 14 0.12
135 2 0.02
136 19 0.17
137 77 0.69
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (134 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGT
GATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGAAAAAGTGATAAGTGGTAGTCTAGCTACA
CTTA
Found at i:59608793 original size:44 final size:44
Alignment explanation
Indices: 59608730--59608818 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
59608720 CAATCTCTAC
59608730 AAGAAATCCAACCAAGTAACCTTATCTGTAGGTACCATAGCTAT
1 AAGAAATCCAACCAAGTAACCTTATCTGTAGGTACCATAGCTAT
59608774 AAGAAATCCAACCAAGTAACCTTATCTGTAGGTACCATAGCTAT
1 AAGAAATCCAACCAAGTAACCTTATCTGTAGGTACCATAGCTAT
59608818 A
1 A
59608819 GTCCAAACAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.25
Consensus pattern (44 bp):
AAGAAATCCAACCAAGTAACCTTATCTGTAGGTACCATAGCTAT
Found at i:59611606 original size:3 final size:3
Alignment explanation
Indices: 59611598--59611649 Score: 54
Period size: 3 Copynumber: 17.0 Consensus size: 3
59611588 TGTTTATTTA
*
59611598 TAT TAT TAT TACT GTAT TAT TAT TAG T-T TAT TAT TA- TAT TAT ATAT
1 TAT TAT TAT TA-T -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
59611644 TAT TAT
1 TAT TAT
59611650 ACTTACTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
2 3 0.07
3 32 0.76
4 5 0.12
5 2 0.05
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:59611617 original size:14 final size:14
Alignment explanation
Indices: 59611598--59611634 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
59611588 TGTTTATTTA
59611598 TATTATTATTACTG
1 TATTATTATTACTG
* *
59611612 TATTATTATTAGTT
1 TATTATTATTACTG
59611626 TATTATTAT
1 TATTATTAT
59611635 ATTATATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (14 bp):
TATTATTATTACTG
Found at i:59611620 original size:22 final size:22
Alignment explanation
Indices: 59611570--59611649 Score: 76
Period size: 22 Copynumber: 3.7 Consensus size: 22
59611560 TTTAGTTTTT
* *
59611570 TTATTATATTGTTAATACTGT-
1 TTATTATATTATTATTACTGTA
59611591 TTATTTATATTATTATTACTGTA
1 TTA-TTATATTATTATTACTGTA
* * *
59611614 TTATTATTAGT-TTATTATTATA
1 TTATTA-TATTATTATTACTGTA
59611636 TTA-TATATTATTAT
1 TTATTATATTATTAT
59611650 ACTTACTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
20 3 0.06
21 9 0.18
22 31 0.63
23 6 0.12
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (22 bp):
TTATTATATTATTATTACTGTA
Found at i:59611628 original size:11 final size:13
Alignment explanation
Indices: 59611598--59611645 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 13
59611588 TGTTTATTTA
59611598 TATTATTATTACTG
1 TATTATTATTAC-G
59611612 TATTATTATTA-G
1 TATTATTATTACG
59611624 T-TTATTATTA--
1 TATTATTATTACG
59611634 TATTATATATTA
1 TATTAT-TATTA
59611646 TTATACTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 1 0.03
11 13 0.41
12 7 0.22
14 11 0.34
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (13 bp):
TATTATTATTACG
Found at i:59611637 original size:8 final size:8
Alignment explanation
Indices: 59611595--59611661 Score: 57
Period size: 8 Copynumber: 7.8 Consensus size: 8
59611585 TACTGTTTAT
59611595 TTATATTA
1 TTATATTA
59611603 TTATTACTGTA
1 TTA-TA-T-TA
59611614 TTATTATTA
1 TTA-TATTA
59611623 GTT-TATTA
1 -TTATATTA
59611631 TTATATTA
1 TTATATTA
59611639 -TATATTA
1 TTATATTA
59611646 TTATACTTA
1 TTATA-TTA
59611655 CTTATAT
1 -TTATAT
59611662 ATGCGTATAT
Statistics
Matches: 51, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
7 9 0.18
8 17 0.33
9 8 0.16
10 9 0.18
11 8 0.16
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (8 bp):
TTATATTA
Found at i:59613498 original size:19 final size:18
Alignment explanation
Indices: 59613470--59613521 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
59613460 AAAGGGTGAG
59613470 AAATAAAAGTTTAGGGGA
1 AAATAAAAGTTTAGGGGA
*
59613488 AAATAAAAAGTTTTGGGG-
1 AAAT-AAAAGTTTAGGGGA
59613506 -AATAAAAGTTTGAGGG
1 AAATAAAAGTTT-AGGG
59613522 AAAGTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 8 0.27
17 6 0.20
18 4 0.13
19 12 0.40
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.25
Consensus pattern (18 bp):
AAATAAAAGTTTAGGGGA
Found at i:59613606 original size:7 final size:7
Alignment explanation
Indices: 59613596--59613621 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
59613586 TTGGGGTTGA
59613596 TGGGAGG
1 TGGGAGG
59613603 TGGGAGG
1 TGGGAGG
59613610 TGGGAGG
1 TGGGAGG
59613617 TGGGA
1 TGGGA
59613622 TGGGAAGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.69, T:0.15
Consensus pattern (7 bp):
TGGGAGG
Found at i:59613657 original size:31 final size:30
Alignment explanation
Indices: 59613622--59613681 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
59613612 GGAGGTGGGA
*
59613622 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
59613653 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
59613682 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:59613967 original size:9 final size:9
Alignment explanation
Indices: 59613950--59613980 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
59613940 TCGAGTTGAT
59613950 TCGAATAAC
1 TCGAATAAC
*
59613959 TCGATTAAC
1 TCGAATAAC
59613968 TCGAATAAC
1 TCGAATAAC
59613977 TCGA
1 TCGA
59613981 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:59618298 original size:24 final size:25
Alignment explanation
Indices: 59618248--59618300 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
59618238 CTTATGAGCG
*
59618248 TCCCGATATATGGCTCTCTGGAGCT
1 TCCCGATATATGGCTCTCTGGAACT
*
59618273 TCCCGATAT-TGGCTCGT-TTGAACT
1 TCCCGATATATGGCTC-TCTGGAACT
59618297 TCCC
1 TCCC
59618301 AATTACAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.15, C:0.30, G:0.21, T:0.34
Consensus pattern (25 bp):
TCCCGATATATGGCTCTCTGGAACT
Found at i:59629044 original size:25 final size:25
Alignment explanation
Indices: 59629016--59629120 Score: 97
Period size: 25 Copynumber: 4.2 Consensus size: 25
59629006 CTGATATTTG
* *
59629016 GCTCGCATGAGCTGCTCGATATACA
1 GCTCGCATGAGCTTCTCGTTATACA
59629041 GCTCG-ATTGAGCTTCTCGTTATACA
1 GCTCGCA-TGAGCTTCTCGTTATACA
** **
59629066 GCTTACATGAGCTTCTCGTTATATG
1 GCTCGCATGAGCTTCTCGTTATACA
* * *
59629091 GCTCGAAAGAGCTTTTCGTT-TACA
1 GCTCGCATGAGCTTCTCGTTATACA
59629115 TGCTCG
1 -GCTCG
59629121 TATGGACATA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
24 3 0.05
25 60 0.94
26 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (25 bp):
GCTCGCATGAGCTTCTCGTTATACA
Found at i:59634702 original size:3 final size:3
Alignment explanation
Indices: 59634694--59634740 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
59634684 TTACTATCAC
59634694 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
59634741 CCCTTCTCCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:59636208 original size:15 final size:15
Alignment explanation
Indices: 59636188--59636219 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
59636178 TAAAAGTTTC
59636188 TAAAAAATTACTAAAA
1 TAAAAAATT-CTAAAA
59636204 TAAAAAATTCTAAAA
1 TAAAAAATTCTAAAA
59636219 T
1 T
59636220 TTGAAAGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAAAATTCTAAAA
Found at i:59640926 original size:28 final size:28
Alignment explanation
Indices: 59640886--59640942 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
59640876 ATAGAAAAGA
59640886 CTCAAAGCACAAGCTAAACTAAGCAATT
1 CTCAAAGCACAAGCTAAACTAAGCAATT
*
59640914 CTCAAAGCACAAGCTAAACTAAGCCATT
1 CTCAAAGCACAAGCTAAACTAAGCAATT
59640942 C
1 C
59640943 AACACCCTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.44, C:0.28, G:0.11, T:0.18
Consensus pattern (28 bp):
CTCAAAGCACAAGCTAAACTAAGCAATT
Found at i:59648620 original size:6 final size:6
Alignment explanation
Indices: 59648611--59648650 Score: 62
Period size: 6 Copynumber: 6.3 Consensus size: 6
59648601 AAATCAAAAT
59648611 AATAAA AATAAA AATAAA AATAAAA AATAAAA AATAAA AA
1 AATAAA AATAAA AATAAA AAT-AAA AAT-AAA AATAAA AA
59648651 AGGGAAGCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 20 0.61
7 13 0.39
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:59648628 original size:12 final size:12
Alignment explanation
Indices: 59648611--59648650 Score: 62
Period size: 13 Copynumber: 3.2 Consensus size: 12
59648601 AAATCAAAAT
59648611 AATAAAAATAAA
1 AATAAAAATAAA
59648623 AATAAAAATAAAA
1 AATAAAAAT-AAA
59648636 AATAAAAAATAAA
1 AAT-AAAAATAAA
59648649 AA
1 AA
59648651 AGGGAAGCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.35
13 11 0.42
14 6 0.23
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AATAAAAATAAA
Found at i:59648630 original size:7 final size:7
Alignment explanation
Indices: 59648601--59648651 Score: 63
Period size: 7 Copynumber: 7.4 Consensus size: 7
59648591 ACGTAAGCAT
59648601 AAATCAAA
1 AAAT-AAA
59648609 ATAAT-AA
1 A-AATAAA
59648616 AAAT-AA
1 AAATAAA
59648622 AAAT-AA
1 AAATAAA
59648628 AAATAAA
1 AAATAAA
59648635 AAATAAA
1 AAATAAA
59648642 AAATAAA
1 AAATAAA
59648649 AAA
1 AAA
59648652 GGGAAGCGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
6 15 0.37
7 22 0.54
8 1 0.02
9 3 0.07
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (7 bp):
AAATAAA
Found at i:59648637 original size:20 final size:21
Alignment explanation
Indices: 59648601--59648650 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
59648591 ACGTAAGCAT
*
59648601 AAATCAAAATAATAAAAAT-AA
1 AAATAAAAAT-ATAAAAATAAA
59648622 AAATAAAAATA-AAAAATAAA
1 AAATAAAAATATAAAAATAAA
59648642 AAATAAAAA
1 AAATAAAAA
59648651 AGGGAAGCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 6 0.22
20 12 0.44
21 9 0.33
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (21 bp):
AAATAAAAATATAAAAATAAA
Found at i:59649069 original size:3 final size:3
Alignment explanation
Indices: 59649061--59649114 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
59649051 TCATCTTCCA
59649061 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
59649109 ACT ACT
1 ACT ACT
59649115 TCCGTTTCTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ACT
Found at i:59658150 original size:18 final size:18
Alignment explanation
Indices: 59658127--59658169 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
59658117 ATAATGTTAT
*
59658127 ATAATATTAATTTAATTA
1 ATAATATTAAGTTAATTA
*
59658145 ATAATATTAAGTTATTTA
1 ATAATATTAAGTTAATTA
*
59658163 ATTATAT
1 ATAATAT
59658170 CAGATGATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
ATAATATTAAGTTAATTA
Found at i:59661740 original size:5 final size:5
Alignment explanation
Indices: 59661730--59661755 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
59661720 TAACATTAGG
59661730 CATAT CATAT CATAT CATAT CATAT C
1 CATAT CATAT CATAT CATAT CATAT C
59661756 TTAGACTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (5 bp):
CATAT
Found at i:59664967 original size:18 final size:18
Alignment explanation
Indices: 59664944--59664980 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
59664934 TTACTTTTAT
*
59664944 TATTATTGTTATTGGTAC
1 TATTATTATTATTGGTAC
*
59664962 TATTATTATTTTTGGTAC
1 TATTATTATTATTGGTAC
59664980 T
1 T
59664981 TCCCTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (18 bp):
TATTATTATTATTGGTAC
Found at i:59667260 original size:16 final size:15
Alignment explanation
Indices: 59667234--59667264 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
59667224 CTGTGTCCTT
59667234 TGATTTTGTTTTCTA
1 TGATTTTGTTTTCTA
59667249 TGATTCTTGTTTTCTA
1 TGATT-TTGTTTTCTA
59667265 CAGTTAGCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.65
Consensus pattern (15 bp):
TGATTTTGTTTTCTA
Found at i:59670639 original size:3 final size:3
Alignment explanation
Indices: 59670631--59670676 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
59670621 TGCCCTTGAA
59670631 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
59670677 TCTGGTTTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:59671915 original size:32 final size:32
Alignment explanation
Indices: 59671879--59671943 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
59671869 CTTCATAGAC
* *
59671879 TTAGCTAACTTTAATGTAAAAATGTGACTGAA
1 TTAGCTAACTTGAATGTAAAAATGAGACTGAA
*
59671911 TTAGCTAACTTGAATGTAAAAATGAGGCTGAA
1 TTAGCTAACTTGAATGTAAAAATGAGACTGAA
59671943 T
1 T
59671944 AAGTTTAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.32
Consensus pattern (32 bp):
TTAGCTAACTTGAATGTAAAAATGAGACTGAA
Found at i:59685883 original size:11 final size:11
Alignment explanation
Indices: 59685869--59685911 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
59685859 TTTTTTTATA
59685869 TATATTATTTG
1 TATATTATTTG
59685880 TATATATATTATG
1 TATAT-TATT-TG
59685893 TATA-TATTTG
1 TATATTATTTG
59685903 TACTATTAT
1 TA-TATTAT
59685912 ACATGTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 4 0.14
11 11 0.39
12 7 0.25
13 6 0.21
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (11 bp):
TATATTATTTG
Found at i:59685883 original size:13 final size:14
Alignment explanation
Indices: 59685867--59685900 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
59685857 TTTTTTTTTA
59685867 TATATATTATT-TG
1 TATATATTATTATG
59685880 TATATA-TATTATG
1 TATATATTATTATG
59685893 TATATATT
1 TATATATT
59685901 TGTACTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.21
13 14 0.74
14 1 0.05
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (14 bp):
TATATATTATTATG
Found at i:59685883 original size:15 final size:13
Alignment explanation
Indices: 59685865--59685899 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
59685855 TTTTTTTTTT
59685865 TATATATATTATTTG
1 TATATATATTA--TG
59685880 TATATATATTATG
1 TATATATATTATG
59685893 TATATAT
1 TATATAT
59685900 TTGTACTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.45
15 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (13 bp):
TATATATATTATG
Found at i:59685917 original size:24 final size:24
Alignment explanation
Indices: 59685869--59685917 Score: 57
Period size: 23 Copynumber: 2.0 Consensus size: 24
59685859 TTTTTTTATA
*
59685869 TATATTATTTGTATATATATTATG
1 TATATTATTTGTATATATATCATG
59685893 TATA-TATTTGTACTAT-TATACATG
1 TATATTATTTGTA-TATATAT-CATG
59685917 T
1 T
59685918 TTGAAATCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (24 bp):
TATATTATTTGTATATATATCATG
Found at i:59697730 original size:199 final size:199
Alignment explanation
Indices: 59697377--59697759 Score: 624
Period size: 199 Copynumber: 1.9 Consensus size: 199
59697367 TTGAAAAGTA
*
59697377 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAACAGTGCAGTGGAACAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAACAGTGCAGTGGAACAGATTGAAGCTA
* **
59697442 CGACGGCGGATCTGGTTTCCCTAATATTGCAATTAAAAAGATTGAAGCCACAACGGTGGATCTTA
66 CGACGGCGGATCTGGTTTCCCTAATATTGCAATTAAAAAGATTGAAGCCACAAAGGCAGATCTTA
* *
59697507 CTTCCTTAGCAGTGCAGCGGAACAGATTGAAGCTACAACGGAAGATCTGGTTTCTCTGATATTAC
131 CTTCCTGAGCAGTGCAGCGGAACAGATTGAAGCTACAACAGAAGATCTGGTTTCTCTGATATTAC
59697572 AATT
196 AATT
*
59697576 AAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAACAGTGCAGTGGAACAGATTGAAGCTA
*
59697641 CGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAAAGATTGAAGCCACAAAGGCAGATCTTA
66 CGACGGCGGATCTGGTTTCCCTAATATTGCAATTAAAAAGATTGAAGCCACAAAGGCAGATCTTA
* * * * **
59697706 CTTTCCTGA-CGGTGCGGTGGAACAGATTGAAGCTACGACAGCGGATCTGGTTTC
131 C-TTCCTGAGCAGTGCAGCGGAACAGATTGAAGCTACAACAGAAGATCTGGTTTC
59697760 CCCAACATTG
Statistics
Matches: 169, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
199 163 0.96
200 6 0.04
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (199 bp):
AAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAACAGTGCAGTGGAACAGATTGAAGCTA
CGACGGCGGATCTGGTTTCCCTAATATTGCAATTAAAAAGATTGAAGCCACAAAGGCAGATCTTA
CTTCCTGAGCAGTGCAGCGGAACAGATTGAAGCTACAACAGAAGATCTGGTTTCTCTGATATTAC
AATT
Found at i:59697779 original size:50 final size:50
Alignment explanation
Indices: 59697380--59697787 Score: 262
Period size: 50 Copynumber: 8.2 Consensus size: 50
59697370 AAAAGTAAAA
* *** *
59697380 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAACAGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTAACAGTGCAGTGGAAC
* * * * ** *
59697430 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTAATATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTAACAGTGCAGTGGAAC
* * *** * * *
59697480 AGATTGAAGCCACAACGGTGGATCTTACTTCCTTAGCAGTGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTAACAGTGCAGTGGAAC
** * * * * * * * *
59697530 AGATTGAAGCTACAACGGAAGATCTGGTTTCTCTGATATTACAAT-TAAA
1 AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTAACAGTGCAGTGGAAC
* * *** * *
59697579 AGATTGAAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTAACAGTGCAGTGGAAC
* * * * * ** *
59697629 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTAACAGTGCAGTGGAAC
* * * ** * * *
59697679 AGATTGAAGCCACAAAGGCAGATCTTACTTT-CCTGACGGTGCGGTGGAAC
1 AGATTGAAGCTACAACGGCGGATC-TGGTTTCCCTAACAGTGCAGTGGAAC
* * * * *
59697729 AGATTGAAGCTACGACAGCGGATCTGGTTTCCCCAACATTGCAGTTGAAC
1 AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTAACAGTGCAGTGGAAC
*
59697779 AAATTGAAG
1 AGATTGAAG
59697788 ATTACAGATC
Statistics
Matches: 251, Mismatches: 104, Indels: 6
0.70 0.29 0.02
Matches are distributed among these distances:
49 36 0.14
50 211 0.84
51 4 0.02
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGGATCTGGTTTCCCTAACAGTGCAGTGGAAC
Found at i:59697787 original size:100 final size:100
Alignment explanation
Indices: 59697375--59697771 Score: 600
Period size: 100 Copynumber: 4.0 Consensus size: 100
59697365 GGTTGAAAAG
*
59697375 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAACAGTGCAGTGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
59697440 TACGACGGCGGATCTGGTTTCCCTAATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTAATATTGCAAT
* *
59697475 TAAAAAGATTGAAGCCACAACGGTGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
* ** * * *
59697540 TACAACGGAAGATCTGGTTTCTCTGATATTACAAT
66 TACGACGGCGGATCTGGTTTCCCTAATATTGCAAT
*
59697575 T-AAAAGATTGAAGCCACAACGACGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
*
59697639 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTAATATTGCAAT
* * * * *
59697674 TAAAAAGATTGAAGCCACAAAGGCAGATCTTACTTTCCTGA-CGGTGCGGTGGAACAGATTGAAG
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTAC-TTCCTTAGCAGTGCAGTGGAACAGATTGAAG
* * *
59697738 CTACGACAGCGGATCTGGTTTCCCCAACATTGCA
65 CTACGACGGCGGATCTGGTTTCCCTAATATTGCA
59697772 GTTGAACAAA
Statistics
Matches: 268, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
99 91 0.34
100 171 0.64
101 6 0.02
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (100 bp):
TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGC
TACGACGGCGGATCTGGTTTCCCTAATATTGCAAT
Found at i:59699403 original size:20 final size:20
Alignment explanation
Indices: 59699378--59699418 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
59699368 TTTTTTTCCT
59699378 TTTTTTTGTTTTTCTAAATTCG
1 TTTTTTTG--TTTCTAAATTCG
*
59699400 TTTTTTTGTTTTTAAATTC
1 TTTTTTTGTTTCTAAATTC
59699419 AATTCAGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.71
Consensus pattern (20 bp):
TTTTTTTGTTTCTAAATTCG
Found at i:59699633 original size:19 final size:19
Alignment explanation
Indices: 59699609--59699647 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
59699599 TTTACAAAAC
*
59699609 ATATATATATATATCTTTT
1 ATATATATATATATATTTT
59699628 ATATATATATATATATTTT
1 ATATATATATATATATTTT
59699647 A
1 A
59699648 AAAAAAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATATATATATATATTTT
Found at i:59701246 original size:123 final size:123
Alignment explanation
Indices: 59701025--59701278 Score: 325
Period size: 123 Copynumber: 2.1 Consensus size: 123
59701015 AAATAGTGGG
** * * * * *
59701025 AAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGTAAAATAGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTAAAATAGCGCCCTCGTAGACGCGATT
*
59701090 TCGCTACAGTGGTCATGTGAGAAATAAT-TTTTTTGACGTTTTCTGAGGAAATAGTATA
66 TCGCTACAGTGGTCATGTGAGAAATAATATTTTTTGACG-TTTCTGAGCAAATAGTATA
* * *
59701148 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTAGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTAAAATAGCGCCCTCGTAGACGCGATT
* * *
59701213 TCGCTACAGTTGGTCATGT-AGGAAATAA-ATTTTTTTGACGTTTCTGATCAAATAGTGTC
66 TCGCTACAG-TGGTCATGTGA-GAAATAATA-TTTTTTGACGTTTCTGAGCAAATAGTATA
59701272 AAATCGC
1 AAATCGC
59701279 GCCCTCATGG
Statistics
Matches: 113, Mismatches: 14, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
123 65 0.58
124 38 0.34
125 10 0.09
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (123 bp):
AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTAAAATAGCGCCCTCGTAGACGCGATT
TCGCTACAGTGGTCATGTGAGAAATAATATTTTTTGACGTTTCTGAGCAAATAGTATA
Found at i:59704490 original size:28 final size:28
Alignment explanation
Indices: 59704446--59704956 Score: 244
Period size: 28 Copynumber: 17.1 Consensus size: 28
59704436 TACAATTTAA
59704446 TTAGGGTTTTTAATTAAATAGGGTTAGGGT
1 TTAGGG-TTTTAATTAAATA-GGTTAGGGT
59704476 TTAGGG-TTTAATTAAATTAGGTTAGGGTT
1 TTAGGGTTTTAATTAAA-TAGGTTAGGG-T
**
59704505 TAGGGTAGGGTTTTTAATTAAATTAAATTA-GG-
1 T----TAGGG-TTTTAATTAAA-TAGGTTAGGGT
59704537 TTAGGGTTTTTAATTTAATTAAATCAGGTTAGGG-
1 TTAGGG----T--TTTAATTAAAT-AGGTTAGGGT
*
59704571 TTAGGGTTTTTAATTAAGTAGGGTTTAGGGT
1 TTAGGG-TTTTAATTAAATA-GG-TTAGGGT
****
59704602 TT-TTAATTTAATTAAATAAGGTTAGGGT
1 TTAGGGTTTTAATTAAAT-AGGTTAGGGT
****
59704630 TT-TTAATTTAATTAAATAGGGTTAGGGT
1 TTAGGGTTTTAATTAAATA-GGTTAGGGT
59704658 TTAGGG-TTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTAATTAAA-TAGGTTAGGGT
59704686 TTAGGGTTTTTAATTTAATTAAATTAGGTTAGGG-
1 TTAGGG----T--TTTAATTAAA-TAGGTTAGGGT
*
59704720 TTAGGGTTTTTAATTAAGTAGGGTTTAGGGT
1 TTAGGG-TTTTAATTAAATA-GG-TTAGGGT
**** *
59704751 TT-TTAATTTAATTAAATAAGGTTAAGGT
1 TTAGGGTTTTAATTAAAT-AGGTTAGGGT
****
59704779 TT-TTAATTTAATTAAATAGAGTTAGGGT
1 TTAGGGTTTTAATTAAATAG-GTTAGGGT
59704807 TTAGGG-TTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTAATTAAA-TAGGTTAGGGT
* **
59704835 TTAGGGTTTTAATTTAATTAAATTA-GG-
1 TTAGGGTTTTAA-TTAAATAGGTTAGGGT
59704862 TTAGGGTTTTTAATTAAATTAGGTTA-GG-
1 TTAGGG-TTTTAATTAAA-TAGGTTAGGGT
59704890 TTAGGGTTTTTAATTTAATTAAATTAGGTTAGGG-
1 TTAGGG----T--TTTAATTAAA-TAGGTTAGGGT
*
59704924 TTAGGGTTTTTAATTAAGTAGGGTTTAGGGT
1 TTAGGG-TTTTAATTAAATA-GG-TTAGGGT
59704955 TT
1 TT
59704957 TTAATTTAAT
Statistics
Matches: 401, Mismatches: 31, Indels: 97
0.76 0.06 0.18
Matches are distributed among these distances:
27 13 0.03
28 165 0.41
29 77 0.19
30 30 0.07
31 16 0.04
32 2 0.00
33 37 0.09
34 24 0.06
35 37 0.09
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (28 bp):
TTAGGGTTTTAATTAAATAGGTTAGGGT
Found at i:59704653 original size:86 final size:85
Alignment explanation
Indices: 59704510--59704975 Score: 509
Period size: 86 Copynumber: 5.3 Consensus size: 85
59704500 GGGTTTAGGG
*
59704510 TAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTTAATTAAATCAGGTTAGGGTTAG
1 TAGGGTTTTTAATTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAAAT-AGGTTAGGGTTAG
59704575 GGTTTTTAATTAAGTAGGGTT
65 GGTTTTTAATTAAGTAGGGTT
*
59704596 TAGGGTTTTTAATTTAATTAAATAAGGTTAGGGTTTTTAATTTAATTAAATAGGGTTAGGGTTTA
1 TAGGGTTTTTAATTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAAATA-GGTTAGGG-TTA
*
59704661 GGGTTTAATTAAATTAGGTTAGGGTT
64 GGGTTT--TT-AATTAAG-TAGGGTT
* *
59704687 TAGGGTTTTTAATTTAATTAAATTAGGTTAGGGTTAGGGTT--TTTAATTAAGTAGGGTTTAGGG
1 TAGGGTTTTTAATTTAATTAAATTAGGTTAGGGTT---TTTAATTTAATTAAATA-GG-TTAGGG
* * *
59704750 TT---TTTAATTTAATTAAATAAGG-T
61 TTAGGGTT--TTTAATTAAGTAGGGTT
* ****
59704773 TAAGGTTTTTAATTTAATTAAA-TAGAGTTAGGGTTTAGGGTTTAATTAAATTAGGTTAGGGTTT
1 TAGGGTTTTTAATTTAATTAAATTAG-GTTAGGGTTTTTAATTTAATTAAA-TAGGTTAGGG-TT
*
59704837 AGGGTTTTAATTTAATTAAATTA-GG-T
63 AGGG--TT--TTTAATT-AAGTAGGGTT
* **
59704863 TAGGGTTTTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAGGTTAGGGTTAG
1 TAGGGTTTTTAATTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAAA-TAGGTTAGGGTTAG
59704928 GGTTTTTAATTAAGTAGGGTT
65 GGTTTTTAATTAAGTAGGGTT
59704949 TAGGGTTTTTAATTTAATTAAATTAGG
1 TAGGGTTTTTAATTTAATTAAATTAGG
59704976 GTTTTTAATT
Statistics
Matches: 325, Mismatches: 29, Indels: 52
0.80 0.07 0.13
Matches are distributed among these distances:
84 10 0.03
85 26 0.08
86 115 0.35
87 15 0.05
88 5 0.02
89 12 0.04
90 69 0.21
91 49 0.15
92 16 0.05
93 6 0.02
94 2 0.01
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.46
Consensus pattern (85 bp):
TAGGGTTTTTAATTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAAATAGGTTAGGGTTAGG
GTTTTTAATTAAGTAGGGTT
Found at i:59704716 original size:149 final size:149
Alignment explanation
Indices: 59704454--59704925 Score: 658
Period size: 149 Copynumber: 3.2 Consensus size: 149
59704444 AATTAGGGTT
* ****
59704454 TTTAATTAAATAGGGTTAGGGTTTAGGGTTTAATTAAATTA-GGTTAGGGTTTAGGGTAGGGTTT
1 TTTAATTAAATAAGGTTAGGGTTTTTAATTTAATTAAA-TAGGGTTAGGG-TT----TAGGG--T
** *
59704518 TTAATTAAATTAAATTA-GG-TTAGGGTTTTTAATTTAATTAAATCAGGTTAGGGTTAGGGTTTT
58 TTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGGTTAGGGTTAGGGTTTT
59704581 TAATTAAGTAGGGTTTAGGGTTTTTAA
123 TAATTAAGTAGGGTTTAGGGTTTTTAA
59704608 TTTAATTAAATAAGGTTAGGGTTTTTAATTTAATTAAATAGGGTTAGGGTTTAGGGTTTAATTAA
1 TTTAATTAAATAAGGTTAGGGTTTTTAATTTAATTAAATAGGGTTAGGGTTTAGGGTTTAATTAA
59704673 ATTAGGTTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAG
66 ATTAGGTTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAG
59704738 TAGGGTTTAGGGTTTTTAA
131 TAGGGTTTAGGGTTTTTAA
* *
59704757 TTTAATTAAATAAGGTTAAGGTTTTTAATTTAATTAAATAGAGTTAGGGTTTAGGGTTTAATTAA
1 TTTAATTAAATAAGGTTAGGGTTTTTAATTTAATTAAATAGGGTTAGGGTTTAGGGTTTAATTAA
59704822 ATTAGGTTAGGGTTTAGGG-TTTTAATTTAATTAAATTAGGTTAGGGTT----TTTAATTAAATT
66 ATTAGGTTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGGTTAGGGTTAGGGTTT--TT-AATT
*
59704882 AGGTTA-GG-TTAGGGTTTTTAA
128 AAG-TAGGGTTTAGGGTTTTTAA
*
59704903 TTTAATTAAATTAGGTTAGGGTT
1 TTTAATTAAATAAGGTTAGGGTT
59704926 AGGGTTTTTA
Statistics
Matches: 298, Mismatches: 13, Indels: 22
0.89 0.04 0.07
Matches are distributed among these distances:
144 3 0.01
146 36 0.12
147 24 0.08
148 33 0.11
149 157 0.53
153 4 0.01
154 41 0.14
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (149 bp):
TTTAATTAAATAAGGTTAGGGTTTTTAATTTAATTAAATAGGGTTAGGGTTTAGGGTTTAATTAA
ATTAGGTTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAG
TAGGGTTTAGGGTTTTTAA
Found at i:59704946 original size:23 final size:23
Alignment explanation
Indices: 59704919--59705007 Score: 117
Period size: 23 Copynumber: 3.8 Consensus size: 23
59704909 TAAATTAGGT
59704919 TAGGGTTAGGGTTTTTAATTAAG
1 TAGGGTTAGGGTTTTTAATTAAG
*
59704942 TAGGGTTTAGGGTTTTTAATTTAAT
1 TAGGG-TTAGGGTTTTTAA-TTAAG
**
59704967 TA-AATTAGGGTTTTTAATTAAG
1 TAGGGTTAGGGTTTTTAATTAAG
*
59704989 TAGGGTTAGGGATTTTAAT
1 TAGGGTTAGGGTTTTTAAT
59705008 CAAATAATAT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
22 6 0.11
23 31 0.55
24 13 0.23
25 6 0.11
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (23 bp):
TAGGGTTAGGGTTTTTAATTAAG
Found at i:59704994 original size:17 final size:18
Alignment explanation
Indices: 59704961--59704995 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
59704951 GGGTTTTTAA
*
59704961 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
59704979 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
59704996 AGGGATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:59707403 original size:22 final size:22
Alignment explanation
Indices: 59707373--59707414 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
59707363 ATTTGGAGAT
*
59707373 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
59707395 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
59707415 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:59707435 original size:52 final size:51
Alignment explanation
Indices: 59707364--59707466 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
59707354 TTAATATGGA
* * *
59707364 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
*
59707415 TTTGAGAGAATTTTGGAAGGAAATTGATAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
59707467 AAATTTGAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:59707495 original size:22 final size:21
Alignment explanation
Indices: 59707416--59707498 Score: 103
Period size: 21 Copynumber: 3.8 Consensus size: 21
59707406 ATTTGAGAGT
*
59707416 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGAAAGG-AA
* *
59707438 TTGATAGAAATTTTGAAGGGAA
1 TTGAGAG-AATTTTGAAAGGAA
*
59707460 TTGAGAGAAATTTGAAAGGAA
1 TTGAGAGAATTTTGAAAGGAA
59707481 TTGAGAGAATTTTTGAAA
1 TTGAGAGAA-TTTTGAAA
59707499 TAAATTGATA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
21 21 0.40
22 21 0.40
23 10 0.19
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAGAGAATTTTGAAAGGAA
Found at i:59707504 original size:22 final size:22
Alignment explanation
Indices: 59707416--59707506 Score: 94
Period size: 22 Copynumber: 4.2 Consensus size: 22
59707406 ATTTGAGAGT
* *
59707416 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTTGAAAGAAA
* * * *
59707438 TTGATAGAAATTTTGAAGGGAA
1 TTGAGAGAATTTTTGAAAGAAA
* *
59707460 TTGAGAGAA-ATTTGAAAGGAA
1 TTGAGAGAATTTTTGAAAGAAA
*
59707481 TTGAGAGAATTTTTGAAATAAA
1 TTGAGAGAATTTTTGAAAGAAA
59707503 TTGA
1 TTGA
59707507 TATTGAATTT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
21 19 0.33
22 39 0.67
ACGTcount: A:0.43, C:0.00, G:0.26, T:0.31
Consensus pattern (22 bp):
TTGAGAGAATTTTTGAAAGAAA
Found at i:59707505 original size:43 final size:44
Alignment explanation
Indices: 59707416--59707506 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 44
59707406 ATTTGAGAGT
* * * * *
59707416 TTGAGAGAATTTTGGAAGGAAATTGATAGAAATTTTGAAGGGAA
1 TTGAGAGAAATTTGAAAGGAAATTGAGAGAAATTTTGAAAGAAA
* *
59707460 TTGAGAGAAATTTGAAAGG-AATTGAGAGAATTTTTGAAATAAA
1 TTGAGAGAAATTTGAAAGGAAATTGAGAGAAATTTTGAAAGAAA
59707503 TTGA
1 TTGA
59707507 TATTGAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 23 0.57
44 17 0.43
ACGTcount: A:0.43, C:0.00, G:0.26, T:0.31
Consensus pattern (44 bp):
TTGAGAGAAATTTGAAAGGAAATTGAGAGAAATTTTGAAAGAAA
Found at i:59715003 original size:9 final size:9
Alignment explanation
Indices: 59714985--59715018 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
59714975 AAAGTAGGAT
59714985 AGAAAATAA
1 AGAAAATAA
*
59714994 AGAGAATAA
1 AGAAAATAA
59715003 AGAAAATAA
1 AGAAAATAA
59715012 AGAAAAT
1 AGAAAAT
59715019 GAGTTTGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.12
Consensus pattern (9 bp):
AGAAAATAA
Found at i:59715535 original size:78 final size:77
Alignment explanation
Indices: 59715400--59715554 Score: 276
Period size: 78 Copynumber: 2.0 Consensus size: 77
59715390 AAATGATAGC
*
59715400 TTGGGAAAGAGAAGATAGCTTGGAGTGTGGGTTTGTGCTCTACAATCTTTGAGATATCCATTATT
1 TTGGGAAAGAGAAGATAACTTGGAGTGTGGGTTTGTGCTCTACAATCTTTGAGATATCCATTATT
59715465 ATGTGTTTAGTT
66 ATGTGTTTAGTT
59715477 TTGGGACAAGAGAAGATAACTTGGAGTGTGGGTTTGTGCTCTACAATCTTTG-GCATATCCATTA
1 TTGGGA-AAGAGAAGATAACTTGGAGTGTGGGTTTGTGCTCTACAATCTTTGAG-ATATCCATTA
59715541 TTATGTGTTTAGTT
64 TTATGTGTTTAGTT
59715555 CGACAGAGAT
Statistics
Matches: 75, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
77 7 0.09
78 68 0.91
ACGTcount: A:0.25, C:0.10, G:0.26, T:0.39
Consensus pattern (77 bp):
TTGGGAAAGAGAAGATAACTTGGAGTGTGGGTTTGTGCTCTACAATCTTTGAGATATCCATTATT
ATGTGTTTAGTT
Found at i:59719516 original size:3 final size:3
Alignment explanation
Indices: 59719508--59719537 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
59719498 GGGGTGGGGG
59719508 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
59719538 GGGATTAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:59720627 original size:5 final size:5
Alignment explanation
Indices: 59720617--59720652 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
59720607 TGACGAAGAG
59720617 AGGGA AGGGA AGGGA AGGGA AGGGA AGGGA AGGGA A
1 AGGGA AGGGA AGGGA AGGGA AGGGA AGGGA AGGGA A
59720653 ACCTGAGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (5 bp):
AGGGA
Found at i:59721218 original size:3 final size:3
Alignment explanation
Indices: 59721212--59721242 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
59721202 TCAAGTACAC
59721212 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
59721243 TTAGAGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:59725596 original size:156 final size:156
Alignment explanation
Indices: 59725364--59725676 Score: 520
Period size: 156 Copynumber: 2.0 Consensus size: 156
59725354 CGATATCAAA
* *
59725364 TGTAAGCTCAAATAAACATGTCATGGAAAATTGGTATGTAAATGATATATCAATTCATAGCATGA
1 TGTAAGCTCAAATAAACATGTCATGGAAAAGTGGTATGTAAATGATATATCAATTCAAAGCATGA
* *
59725429 TACCATTGAGAATTCCAAAGTCTTAATCCT-AAGTAAAAATATGAATCTTATATCCTAAGTCTAA
66 TACCATCGAGAATTCCAAAGTCTTAA-CCTGAAGTAAAAATATGAATCTTATATACTAAGTCTAA
59725493 GTCTAATCCTAATTCTAGTTCTAAACC
130 GTCTAATCCTAATTCTAGTTCTAAACC
* *
59725520 TGTAAGCTCAAATAAACATGTCATGGAATAGTGGTATGTAAATGATATATTAATTCAAAGCATGA
1 TGTAAGCTCAAATAAACATGTCATGGAAAAGTGGTATGTAAATGATATATCAATTCAAAGCATGA
* *
59725585 TACCATCGAGAATTCCAAAGTCTTAAGCTGAAGTAAAAATATTAATCTTATATACTAAGTCTAAG
66 TACCATCGAGAATTCCAAAGTCTTAACCTGAAGTAAAAATATGAATCTTATATACTAAGTCTAAG
* *
59725650 TTTAATCCTTATTCTAGTTCTAAACC
131 TCTAATCCTAATTCTAGTTCTAAACC
59725676 T
1 T
59725677 AGTTTTGTGT
Statistics
Matches: 146, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
155 2 0.01
156 144 0.99
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (156 bp):
TGTAAGCTCAAATAAACATGTCATGGAAAAGTGGTATGTAAATGATATATCAATTCAAAGCATGA
TACCATCGAGAATTCCAAAGTCTTAACCTGAAGTAAAAATATGAATCTTATATACTAAGTCTAAG
TCTAATCCTAATTCTAGTTCTAAACC
Found at i:59725726 original size:12 final size:11
Alignment explanation
Indices: 59725686--59725747 Score: 61
Period size: 12 Copynumber: 5.3 Consensus size: 11
59725676 TAGTTTTGTG
59725686 TTTAATCCTAA
1 TTTAATCCTAA
* *
59725697 GTTGAATTCTAAA
1 -TTTAATCCT-AA
*
59725710 CTTAATCCTAGA
1 TTTAATCCTA-A
59725722 TTTAATCCTAA
1 TTTAATCCTAA
59725733 TTCTAATCCTAA
1 TT-TAATCCTAA
59725745 TTT
1 TTT
59725748 TATAAACTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
11 5 0.12
12 34 0.83
13 2 0.05
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.44
Consensus pattern (11 bp):
TTTAATCCTAA
Found at i:59726416 original size:15 final size:16
Alignment explanation
Indices: 59726382--59726431 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
59726372 GTTTTTCTGC
59726382 TTTATAGCCAACCAAT
1 TTTATAGCCAACCAAT
59726398 TTTATAGCCAACC-AT
1 TTTATAGCCAACCAAT
59726413 TTTATAGCCAACCAAT
1 TTTATAGCCAACCAAT
59726429 TTT
1 TTT
59726432 TTTAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 15 0.45
16 18 0.55
ACGTcount: A:0.34, C:0.24, G:0.06, T:0.36
Consensus pattern (16 bp):
TTTATAGCCAACCAAT
Found at i:59730511 original size:26 final size:26
Alignment explanation
Indices: 59730475--59730526 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
59730465 ATGTCCCATC
59730475 TTCAATTAAACAAAAAGAAAAGCTAA
1 TTCAATTAAACAAAAAGAAAAGCTAA
59730501 TTCAATTAAACAAAAAGAAAAGCTAA
1 TTCAATTAAACAAAAAGAAAAGCTAA
59730527 CAGCTCGGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.62, C:0.12, G:0.08, T:0.19
Consensus pattern (26 bp):
TTCAATTAAACAAAAAGAAAAGCTAA
Found at i:59736805 original size:23 final size:23
Alignment explanation
Indices: 59736778--59736828 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
59736768 AAATTATTTG
* *
59736778 AGTAATATCCCGAAAATTACTAC
1 AGTAATACCCCAAAAATTACTAC
*
59736801 TGTAATACCCCAAAAATTACTAC
1 AGTAATACCCCAAAAATTACTAC
59736824 AGTAA
1 AGTAA
59736829 GAAATCAGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (23 bp):
AGTAATACCCCAAAAATTACTAC
Found at i:59747861 original size:19 final size:18
Alignment explanation
Indices: 59747837--59747874 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
59747827 TGACAATGAA
59747837 TCATTTCTCAGTTT-CATTT
1 TCATTTC-CA-TTTCCATTT
59747856 TCATTTCCATTTCCATTT
1 TCATTTCCATTTCCATTT
59747874 T
1 T
59747875 GACAAAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.17
18 8 0.44
19 7 0.39
ACGTcount: A:0.16, C:0.24, G:0.03, T:0.58
Consensus pattern (18 bp):
TCATTTCCATTTCCATTT
Found at i:59750863 original size:11 final size:11
Alignment explanation
Indices: 59750842--59750871 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
59750832 GTTAGGCTTA
59750842 AAGGAGTTCACT
1 AAGG-GTTCACT
59750854 AAGGGTTCACT
1 AAGGGTTCACT
59750865 AAGGGTT
1 AAGGGTT
59750872 AATTATGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (11 bp):
AAGGGTTCACT
Found at i:59751639 original size:25 final size:25
Alignment explanation
Indices: 59751604--59751669 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
59751594 AAAAACAACC
* * *
59751604 ATAAAACTAAAATATAGT-TCAAAAG
1 ATAAAAATAAAATA-AGTCTAAAAAA
59751629 ATAAAAATAAAATAAGTCTAAAAAA
1 ATAAAAATAAAATAAGTCTAAAAAA
*
59751654 ATAACAATAAACATAA
1 ATAAAAATAAA-ATAA
59751670 AATAAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 3 0.09
25 28 0.80
26 4 0.11
ACGTcount: A:0.67, C:0.08, G:0.05, T:0.21
Consensus pattern (25 bp):
ATAAAAATAAAATAAGTCTAAAAAA
Found at i:59751642 original size:5 final size:5
Alignment explanation
Indices: 59751632--59751690 Score: 59
Period size: 5 Copynumber: 11.6 Consensus size: 5
59751622 TCAAAAGATA
**
59751632 AAAAT AAAAT AAGTCT AAAA- A-AAT AACAAT AAACAT AAAAT AAAAT
1 AAAAT AAAAT AA-AAT AAAAT AAAAT AA-AAT AAA-AT AAAAT AAAAT
59751678 AAAAT AAAAT AAA
1 AAAAT AAAAT AAA
59751691 TAGACTCAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 28 0.62
6 13 0.29
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:59753364 original size:12 final size:13
Alignment explanation
Indices: 59753347--59753414 Score: 61
Period size: 12 Copynumber: 5.5 Consensus size: 13
59753337 GTATATATAT
59753347 AAATAAGAATAA-
1 AAATAAGAATAAC
* *
59753359 AAATAACAATAAA
1 AAATAAGAATAAC
*
59753372 AAATAA-TATAAC
1 AAATAAGAATAAC
* *
59753384 TAATAAGAATAAT
1 AAATAAGAATAAC
*
59753397 AAATAA-AAAAAC
1 AAATAAGAATAAC
59753409 AAATAA
1 AAATAA
59753415 ATAAAATAGA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
12 30 0.67
13 15 0.33
ACGTcount: A:0.74, C:0.04, G:0.03, T:0.19
Consensus pattern (13 bp):
AAATAAGAATAAC
Found at i:59753395 original size:37 final size:36
Alignment explanation
Indices: 59753348--59753418 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 36
59753338 TATATATATA
59753348 AATAAGAATAA-AAATAACAATAAA-AAATAATATAACT
1 AATAAGAATAATAAATAA-AA-AAACAAATAA-ATAACT
59753385 AATAAGAATAATAAATAAAAAAACAAATAAATAA
1 AATAAGAATAATAAATAAAAAAACAAATAAATAA
59753419 AATAGACAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
36 7 0.22
37 19 0.59
38 6 0.19
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.20
Consensus pattern (36 bp):
AATAAGAATAATAAATAAAAAAACAAATAAATAACT
Found at i:59753413 original size:25 final size:25
Alignment explanation
Indices: 59753345--59753414 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
59753335 ATGTATATAT
59753345 ATAAATAAGAATAA-AAATAACAATA
1 ATAAATAA-AATAACAAATAACAATA
* * * *
59753370 AAAAATAATATAACTAATAAGAATA
1 ATAAATAAAATAACAAATAACAATA
*
59753395 ATAAATAAAAAAACAAATAA
1 ATAAATAAAATAACAAATAA
59753415 ATAAAATAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
24 4 0.11
25 32 0.89
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.20
Consensus pattern (25 bp):
ATAAATAAAATAACAAATAACAATA
Found at i:59760667 original size:14 final size:14
Alignment explanation
Indices: 59760648--59760678 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
59760638 TGATTGTTTT
*
59760648 TAATCTAAATTTAC
1 TAATCTAAATTAAC
59760662 TAATCTAAATTAAC
1 TAATCTAAATTAAC
59760676 TAA
1 TAA
59760679 AAACGCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:59761549 original size:30 final size:30
Alignment explanation
Indices: 59761510--59761645 Score: 218
Period size: 30 Copynumber: 4.5 Consensus size: 30
59761500 CATGGGTATA
59761510 TGGCCAGCCCGTGTGGCTCACACGAGCGTG
1 TGGCCAGCCCGTGTGGCTCACACGAGCGTG
* * *
59761540 TGACCAGCCCGTGTGGCTCGCATGAGCGTG
1 TGGCCAGCCCGTGTGGCTCACACGAGCGTG
*
59761570 TGGCCAGCCCGTGTGGCTCACATGAGCGTG
1 TGGCCAGCCCGTGTGGCTCACACGAGCGTG
* *
59761600 TGGCCAGCCCATGTGGCTCGCACGAGCGTG
1 TGGCCAGCCCGTGTGGCTCACACGAGCGTG
59761630 TGGCCAGCCCGTGTGG
1 TGGCCAGCCCGTGTGG
59761646 AAATGCCCAG
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 97 1.00
ACGTcount: A:0.12, C:0.32, G:0.38, T:0.18
Consensus pattern (30 bp):
TGGCCAGCCCGTGTGGCTCACACGAGCGTG
Found at i:59761571 original size:17 final size:16
Alignment explanation
Indices: 59761549--59761603 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 16
59761539 GTGACCAGCC
59761549 CGTGTGGCTCGCATGAG
1 CGTGTGGCTC-CATGAG
**
59761566 CGTGTGG--CCA-GCC
1 CGTGTGGCTCCATGAG
59761579 CGTGTGGCTCACATGAG
1 CGTGTGGCTC-CATGAG
59761596 CGTGTGGC
1 CGTGTGGC
59761604 CAGCCCATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
13 8 0.27
14 2 0.07
15 2 0.07
16 2 0.07
17 16 0.53
ACGTcount: A:0.11, C:0.27, G:0.40, T:0.22
Consensus pattern (16 bp):
CGTGTGGCTCCATGAG
Found at i:59762356 original size:21 final size:23
Alignment explanation
Indices: 59762322--59762365 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
59762312 ATGAACATCT
*
59762322 CTAAACTCTTATAC-AAGTATTC
1 CTAAACTCATATACAAAGTATTC
59762344 CTAAA-TCATATACAAAGTATTC
1 CTAAACTCATATACAAAGTATTC
59762366 TAATAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (23 bp):
CTAAACTCATATACAAAGTATTC
Found at i:59762368 original size:21 final size:21
Alignment explanation
Indices: 59762321--59762368 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
59762311 TATGAACATC
*
59762321 TCTAAACTCTTATACAAGTAT
1 TCTAAACTCATATACAAGTAT
59762342 TCCTAAA-TCATATACAAAGTAT
1 T-CTAAACTCATATAC-AAGTAT
59762364 TCTAA
1 TCTAA
59762369 TAAATATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (21 bp):
TCTAAACTCATATACAAGTAT
Found at i:59770815 original size:20 final size:20
Alignment explanation
Indices: 59770792--59770832 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
59770782 TCCCATAAGA
59770792 ATTTTT-TTTCTCTCAATTTT
1 ATTTTTATTTCTCT-AATTTT
59770812 ATTTTTAATTTCTCTAATTTT
1 ATTTTT-ATTTCTCTAATTTT
59770833 CGATTCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 6 0.32
22 7 0.37
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.68
Consensus pattern (20 bp):
ATTTTTATTTCTCTAATTTT
Found at i:59781728 original size:20 final size:20
Alignment explanation
Indices: 59781703--59781776 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
59781693 CAAAAAAGGA
* * *
59781703 CACCGAAGTGTATACAGGGG
1 CACCGAAGTGCAAACAGAGG
59781723 CACCGAAGTGCAAACAGAGG
1 CACCGAAGTGCAAACAGAGG
*
59781743 CACCGAAGTGCAAATAGAGG
1 CACCGAAGTGCAAACAGAGG
*
59781763 CACCAAAGTGCAAA
1 CACCGAAGTGCAAA
59781777 TCCTGTACAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.39, C:0.23, G:0.28, T:0.09
Consensus pattern (20 bp):
CACCGAAGTGCAAACAGAGG
Found at i:59786614 original size:27 final size:27
Alignment explanation
Indices: 59786563--59786649 Score: 149
Period size: 27 Copynumber: 3.3 Consensus size: 27
59786553 AAAAATAATC
*
59786563 AAAATATTATAA-CTTTTTTATTTACT
1 AAAATATTATAATTTTTTTTATTTACT
*
59786589 AAAATATTATAATTTTTTTTATTTACC
1 AAAATATTATAATTTTTTTTATTTACT
59786616 AAAATATTATAATTTTTTTTATTTACT
1 AAAATATTATAATTTTTTTTATTTACT
59786643 AAAATAT
1 AAAATAT
59786650 ACAAAAAAAC
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 12 0.21
27 45 0.79
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (27 bp):
AAAATATTATAATTTTTTTTATTTACT
Found at i:59786735 original size:27 final size:27
Alignment explanation
Indices: 59786705--59786756 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
59786695 GGCCAATCAC
59786705 ATTGGCGGCACCAAAGGTGCCAAAGTG
1 ATTGGCGGCACCAAAGGTGCCAAAGTG
*
59786732 ATTGGCGGCACCAATGGTGCCAAAG
1 ATTGGCGGCACCAAAGGTGCCAAAG
59786757 GACTAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.23, G:0.33, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAAAGTG
Found at i:59787360 original size:18 final size:18
Alignment explanation
Indices: 59787312--59787360 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
59787302 TCTAATTAAG
*
59787312 TAATAACTCTATTTTAATT
1 TAATAACT-TATTCTAATT
** *
59787331 TAATAAAATATTCTCATT
1 TAATAACTTATTCTAATT
59787349 TAATAACTTATT
1 TAATAACTTATT
59787361 AAATGAGAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATAACTTATTCTAATT
Found at i:59787389 original size:18 final size:18
Alignment explanation
Indices: 59787356--59787390 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59787346 ATTTAATAAC
*
59787356 TTATTAAATGAGAATAGT
1 TTATTAAATGAAAATAGT
*
59787374 TTATTAAATTAAAATAG
1 TTATTAAATGAAAATAG
59787391 AGTTATTACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (18 bp):
TTATTAAATGAAAATAGT
Found at i:59787871 original size:27 final size:28
Alignment explanation
Indices: 59787816--59787884 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
59787806 TTTTTTTGGT
*
59787816 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTGATA
59787844 ATATTTTGGTAAATAAAAAAAAG-GATA
1 ATATTTTGGTAAATAAAAAAAAGTGATA
59787871 ATATTTTGGTAAAT
1 ATATTTTGGTAAAT
59787885 TTTTATTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 17 0.43
28 23 0.57
ACGTcount: A:0.51, C:0.00, G:0.13, T:0.36
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTGATA
Found at i:59791008 original size:15 final size:15
Alignment explanation
Indices: 59790990--59791029 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
59790980 GTGATTGAAG
*
59790990 TTTTTATTTTTGTTA
1 TTTTTATTTTTGTAA
*
59791005 TTTTTATGTTTGTAA
1 TTTTTATTTTTGTAA
*
59791020 TTTATATTTT
1 TTTTTATTTT
59791030 AATAGATTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.75
Consensus pattern (15 bp):
TTTTTATTTTTGTAA
Found at i:59795051 original size:6 final size:6
Alignment explanation
Indices: 59795040--59795074 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
59795030 TCACTTGTTT
*
59795040 ATAAAA AT-AAA ATAAAA ATAAAA ATAAAG ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
59795075 GAAACAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:59795056 original size:11 final size:11
Alignment explanation
Indices: 59795040--59795074 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
59795030 TCACTTGTTT
59795040 ATAAAAATAAA
1 ATAAAAATAAA
59795051 ATAAAAATAAAA
1 ATAAAAAT-AAA
*
59795063 ATAAAGATAAA
1 ATAAAAATAAA
59795074 A
1 A
59795075 GAAACAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:59795755 original size:44 final size:45
Alignment explanation
Indices: 59795689--59795893 Score: 202
Period size: 44 Copynumber: 4.6 Consensus size: 45
59795679 TTTCGATCCA
* ** * * *
59795689 CTCCACTAC-ACTTCAAAGAGATATGGCTTG-TAGCTTCAAACTG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTTGTTATCTTCAACCTG
* * *
59795732 CTCCACTGCGACTTCAGGGAGATAAGG-TTGGTTTATTTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTT-G-TTATCTTCAACCTG
* * **
59795778 CTCCACTACAACTTCAGGGAGATAAGGTTTGTTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTTGTTATCTTCAACCTG
* * *
59795823 CTCCACTGCAACTTCAGGGAAATAAGACTTG-TATCTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGGCTTGTTATCTTCAACCTG
* *
59795867 CCCCACTGCAACTTCAGGGAAATAAGG
1 CTCCACTGCAACTTCAGGGAGATAAGG
59795894 GAAATAAGAC
Statistics
Matches: 134, Mismatches: 23, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
43 10 0.07
44 50 0.37
45 37 0.28
46 35 0.26
47 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGGCTTGTTATCTTCAACCTG
Found at i:59795839 original size:45 final size:45
Alignment explanation
Indices: 59795729--59795893 Score: 206
Period size: 45 Copynumber: 3.7 Consensus size: 45
59795719 TAGCTTCAAA
* * * *
59795729 CTGCTCCACTGCGACTTCAGGGAGATAAGGTTGGTTTATTTTTAAC
1 CTGCTCCACTGCAACTTCAGGGAAATAAGGTTTG-TTATCTTTAAC
* * * **
59795775 CTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTTATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAAATAAGGTTTGTTATCTTTAAC
**
59795820 CTGCTCCACTGCAACTTCAGGGAAATAAGACTTG-TATCTTTAAC
1 CTGCTCCACTGCAACTTCAGGGAAATAAGGTTTGTTATCTTTAAC
*
59795864 CTGCCCCACTGCAACTTCAGGGAAATAAGG
1 CTGCTCCACTGCAACTTCAGGGAAATAAGG
59795894 GAAATAAGAC
Statistics
Matches: 103, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
44 35 0.34
45 37 0.36
46 31 0.30
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (45 bp):
CTGCTCCACTGCAACTTCAGGGAAATAAGGTTTGTTATCTTTAAC
Found at i:59795892 original size:89 final size:90
Alignment explanation
Indices: 59795729--59795893 Score: 235
Period size: 89 Copynumber: 1.8 Consensus size: 90
59795719 TAGCTTCAAA
* * * * *
59795729 CTGCTCCACTGCGACTTCAGGGAGATAAGGTTGGTTTATTTTTAACCTGCTCCACTACAACTTCA
1 CTGCTCCACTGCAACTTCAGGGAAATAAGCTTGG-TTATCTTTAACCTGCCCCACTACAACTTCA
*
59795794 GGGAGATAAGGTTTGTTATCTTCAGT
65 GGGAAATAAGGTTTGTTATCTTCAGT
*
59795820 CTGCTCCACTGCAACTTCAGGGAAATAAGACTT-G-TATCTTTAACCTGCCCCACTGCAACTTCA
1 CTGCTCCACTGCAACTTCAGGGAAATAAG-CTTGGTTATCTTTAACCTGCCCCACTACAACTTCA
59795883 GGGAAATAAGG
65 GGGAAATAAGG
59795894 GAAATAAGAC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
89 36 0.55
91 28 0.42
92 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (90 bp):
CTGCTCCACTGCAACTTCAGGGAAATAAGCTTGGTTATCTTTAACCTGCCCCACTACAACTTCAG
GGAAATAAGGTTTGTTATCTTCAGT
Found at i:59796145 original size:50 final size:50
Alignment explanation
Indices: 59796070--59796328 Score: 268
Period size: 50 Copynumber: 5.2 Consensus size: 50
59796060 TAATGTCGGT
* *
59796070 GATTCGCTCTTGTAGCTTCAATCTATTCCACTACACTGCCAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACTGCCAGGGAAGTAA
* ** * * * * *
59796120 GATTCGTTGTTGTAGCTTCAATCTATTTAATTGTAATGTCAGGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACTGCCAGGGAAGTAA
* * *
59796170 AATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACTACCAAGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACTGCCAGGGAAGTAA
* * ** * * *
59796220 GATTCGCTATTGTAGCTTCAATCTGTTTAACTGCAATGTC-GAGGAAGCAA
1 GATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACTGCCAG-GGAAGTAA
* * * **
59796270 GATTCGTTGTTGTAGCTTCAATCTGTTCCACTACACCACCAGGGAAGTAA
1 GATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACTGCCAGGGAAGTAA
*
59796320 AATTCGCTG
1 GATTCGCTG
59796329 CCTTCAGCTT
Statistics
Matches: 164, Mismatches: 43, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
50 163 0.99
51 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (50 bp):
GATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACTGCCAGGGAAGTAA
Found at i:59796216 original size:100 final size:100
Alignment explanation
Indices: 59796071--59796327 Score: 372
Period size: 100 Copynumber: 2.6 Consensus size: 100
59796061 AATGTCGGTG
* * * *
59796071 ATTCGCTCTTGTAGCTTCAATCTATTCCACTACACTGCCAGGGAAGTAAGATTCGTTGTTGTAGC
1 ATTCGCTGTTGTAGCTTCAATCTATTCCACTACACTACCAGGGAAGTAAGATTCGCTATTGTAGC
* *
59796136 TTCAATCTATTTAATTGTAATGTC-AGGGAAGCAAA
66 TTCAATCTATTTAACTGCAATGTCGA-GGAAGCAAA
* *
59796171 ATTCGCTGTTGTAGCTTCAATCTATTCCACTGCACTACCAAGGAAGTAAGATTCGCTATTGTAGC
1 ATTCGCTGTTGTAGCTTCAATCTATTCCACTACACTACCAGGGAAGTAAGATTCGCTATTGTAGC
* *
59796236 TTCAATCTGTTTAACTGCAATGTCGAGGAAGCAAG
66 TTCAATCTATTTAACTGCAATGTCGAGGAAGCAAA
* * * *
59796271 ATTCGTTGTTGTAGCTTCAATCTGTTCCACTACACCACCAGGGAAGTAAAATTCGCT
1 ATTCGCTGTTGTAGCTTCAATCTATTCCACTACACTACCAGGGAAGTAAGATTCGCT
59796328 GCCTTCAGCT
Statistics
Matches: 140, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
100 139 0.99
101 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (100 bp):
ATTCGCTGTTGTAGCTTCAATCTATTCCACTACACTACCAGGGAAGTAAGATTCGCTATTGTAGC
TTCAATCTATTTAACTGCAATGTCGAGGAAGCAAA
Found at i:59796461 original size:136 final size:136
Alignment explanation
Indices: 59796208--59796500 Score: 457
Period size: 136 Copynumber: 2.2 Consensus size: 136
59796198 CACTGCACTA
*
59796208 CCAAGGA-AGTAAGATTCGCTATTGTAGCTTCAATCTGTTTAACTGCAATGTCGAGGAAGCAAGA
1 CCAAGGAGA-TAAGATTCGCTGTTGTAGCTTCAATCTGTTTAACTGCAATGTCGAGGAAGCAAGA
* * * *
59796272 TTCGTTGTTGTAGCTTCAATCTGTTCCACTACACCACCAGGGAAGTAAAATTCGCTGCCTTCAGC
65 TTCGCTATTGTAGCTTCAATCTATTCCACTACACCACCAAGGAAGTAAAATTCGCTGCCTTCAGC
*
59796337 TTTAATG
130 TTTAACG
*
59796344 CC-AGTGAGATAAGATTCGCTGTTGTAGCTTCAATCTGTTTAATTGCAATGTC-AGAGAAGCAAG
1 CCAAG-GAGATAAGATTCGCTGTTGTAGCTTCAATCTGTTTAACTGCAATGTCGAG-GAAGCAAG
* *
59796407 ATTTGCTATTGTAGCTTCAATCTATTCCACTACATCACCAAGGAAGTAAAATTCGCTGCCTTCAG
64 ATTCGCTATTGTAGCTTCAATCTATTCCACTACACCACCAAGGAAGTAAAATTCGCTGCCTTCAG
59796472 CTTTAACG
129 CTTTAACG
59796480 CCAAGGAGATAAGATTCGCTG
1 CCAAGGAGATAAGATTCGCTG
59796501 CCTTCAGCTT
Statistics
Matches: 144, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
135 4 0.03
136 137 0.95
137 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (136 bp):
CCAAGGAGATAAGATTCGCTGTTGTAGCTTCAATCTGTTTAACTGCAATGTCGAGGAAGCAAGAT
TCGCTATTGTAGCTTCAATCTATTCCACTACACCACCAAGGAAGTAAAATTCGCTGCCTTCAGCT
TTAACG
Found at i:59796497 original size:36 final size:36
Alignment explanation
Indices: 59796444--59796513 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 36
59796434 CACTACATCA
59796444 CCAAGGAAGTAAAATTCGCTGCCTTCAGCTTTAACG
1 CCAAGGAAGTAAAATTCGCTGCCTTCAGCTTTAACG
*
59796480 CCAAGG-AGATAAGATTCGCTGCCTTCAGCTTTAA
1 CCAAGGAAG-TAAAATTCGCTGCCTTCAGCTTTAA
59796514 TCTGCTTCGC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 2 0.06
36 30 0.94
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (36 bp):
CCAAGGAAGTAAAATTCGCTGCCTTCAGCTTTAACG
Found at i:59796564 original size:51 final size:52
Alignment explanation
Indices: 59796466--59796568 Score: 136
Period size: 51 Copynumber: 2.0 Consensus size: 52
59796456 AATTCGCTGC
* * * * *
59796466 CTTCAGCTTTAACGCCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTG
1 CTTCAGCTGTAACGCCAAGAAAATAAGATTCGCTACCTTCAGATTTAATCTG
* *
59796518 CTTC-GCTGTAACGCCAAGAAAATAGGATTCGCTACCTTTAGATTTAATCTG
1 CTTCAGCTGTAACGCCAAGAAAATAAGATTCGCTACCTTCAGATTTAATCTG
59796569 TTCCACTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 40 0.91
52 4 0.09
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (52 bp):
CTTCAGCTGTAACGCCAAGAAAATAAGATTCGCTACCTTCAGATTTAATCTG
Found at i:59796625 original size:51 final size:51
Alignment explanation
Indices: 59796480--59796626 Score: 145
Period size: 51 Copynumber: 2.9 Consensus size: 51
59796470 AGCTTTAACG
* * * * * * *
59796480 CCAAGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTTCGCTGTAACG
1 CCAAAGAGATAGGATTCGCTGCTTTCAGCTTTAATCTGCTCCACTGCAACA
* * * *
59796531 CC-AAGAAAATAGGATTCGCTACCTTT-AGATTTAATCTGTTCCACTGCAACA
1 CCAAAG-AGATAGGATTCGCT-GCTTTCAGCTTTAATCTGCTCCACTGCAACA
**
59796582 CCAAAGAGATAGGATTCGCTGCTTTCAGCTTTAATCCACTCCACT
1 CCAAAGAGATAGGATTCGCTGCTTTCAGCTTTAATCTGCTCCACT
59796627 TCAGCTTTAA
Statistics
Matches: 75, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
50 6 0.08
51 63 0.84
52 6 0.08
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (51 bp):
CCAAAGAGATAGGATTCGCTGCTTTCAGCTTTAATCTGCTCCACTGCAACA
Found at i:59796631 original size:21 final size:21
Alignment explanation
Indices: 59796605--59796647 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
59796595 ATTCGCTGCT
59796605 TTCAGCTTTAATCCACTCCAC
1 TTCAGCTTTAATCCACTCCAC
* *
59796626 TTCAGCTTTAATCTATTCCAC
1 TTCAGCTTTAATCCACTCCAC
59796647 T
1 T
59796648 GCAACATCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.33, G:0.05, T:0.40
Consensus pattern (21 bp):
TTCAGCTTTAATCCACTCCAC
Found at i:59803356 original size:12 final size:12
Alignment explanation
Indices: 59803339--59803373 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
59803329 ATATGCTTCT
59803339 TTCTTCTTAGAC
1 TTCTTCTTAGAC
*
59803351 TTCTTCTTGGAC
1 TTCTTCTTAGAC
*
59803363 TTCTTCATAGA
1 TTCTTCTTAGA
59803374 ACTCCATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.49
Consensus pattern (12 bp):
TTCTTCTTAGAC
Found at i:59809037 original size:30 final size:32
Alignment explanation
Indices: 59809003--59809070 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 32
59808993 GATATAATAG
* * *
59809003 AAAGTAT-ATATAAGTATGTATATATT-TACA
1 AAAGTATAAAATAAGTACGTATATATTATAAA
*
59809033 AAAGT-TAAAATATGTACGTATATATTATAAA
1 AAAGTATAAAATAAGTACGTATATATTATAAA
59809064 AAAGTAT
1 AAAGTAT
59809071 GTGTATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
29 1 0.03
30 21 0.68
31 8 0.26
32 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.37
Consensus pattern (32 bp):
AAAGTATAAAATAAGTACGTATATATTATAAA
Found at i:59815902 original size:22 final size:21
Alignment explanation
Indices: 59815867--59815908 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
59815857 TAAAATAGGA
*
59815867 AAATAAAAATAAATAATATAAC
1 AAATAAAAACAAATAA-ATAAC
*
59815889 AAATAATAACAAATAAATAA
1 AAATAAAAACAAATAAATAA
59815909 AATAGAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (21 bp):
AAATAAAAACAAATAAATAAC
Found at i:59815922 original size:26 final size:24
Alignment explanation
Indices: 59815851--59815929 Score: 83
Period size: 26 Copynumber: 3.2 Consensus size: 24
59815841 GTATAAGAAT
*
59815851 AATAAATAAAATAG-GAAAATAAA
1 AATAAATAAAATAGAAAAAATAAA
*
59815874 AATAAATAATATA-ACAAATAATAACA
1 AATAAATAAAATAGA-AAA-AATAA-A
59815900 AATAAATAAAATAGAATAAAAT-AA
1 AATAAATAAAATAGAA-AAAATAAA
59815924 AATAAA
1 AATAAA
59815930 AGGGGTAGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
23 12 0.26
24 9 0.19
25 6 0.13
26 17 0.36
27 3 0.06
ACGTcount: A:0.73, C:0.03, G:0.04, T:0.20
Consensus pattern (24 bp):
AATAAATAAAATAGAAAAAATAAA
Found at i:59816550 original size:11 final size:12
Alignment explanation
Indices: 59816526--59816550 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59816516 TCAAAAACAC
59816526 TTTTTAAAATTT
1 TTTTTAAAATTT
59816538 TTTTTAAAATTT
1 TTTTTAAAATTT
59816550 T
1 T
59816551 GAAAATTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTAAAATTT
Found at i:59827587 original size:17 final size:16
Alignment explanation
Indices: 59827565--59827598 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
59827555 ATTATATAAT
59827565 TAATGATAATTAAATTA
1 TAATGAT-ATTAAATTA
*
59827582 TAATGATATTATATTA
1 TAATGATATTAAATTA
59827598 T
1 T
59827599 TAAATAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
TAATGATATTAAATTA
Found at i:59829060 original size:6 final size:6
Alignment explanation
Indices: 59829043--59829092 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
59829033 GTGTGTTGAA
* ** *
59829043 TACTGT TCCTGT TACTGT TACTGT TACTAC TACCGT TACTGAT TACTGT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT
59829092 T
1 T
59829093 TAGGTCCTGT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (6 bp):
TACTGT
Found at i:59835094 original size:17 final size:16
Alignment explanation
Indices: 59835072--59835105 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
59835062 ATTATATAAT
59835072 TAATGATAATTAAATTA
1 TAATGAT-ATTAAATTA
*
59835089 TAATGATATTATATTA
1 TAATGATATTAAATTA
59835105 T
1 T
59835106 TAAATAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
TAATGATATTAAATTA
Found at i:59835525 original size:7 final size:7
Alignment explanation
Indices: 59835513--59835554 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
59835503 AAAACTTGAA
59835513 AGGGTTT
1 AGGGTTT
59835520 AGGGTTT
1 AGGGTTT
59835527 AGGGTTT
1 AGGGTTT
*
59835534 AAGGTTT
1 AGGGTTT
59835541 A-GGTTT
1 AGGGTTT
*
59835547 AAGGTTT
1 AGGGTTT
59835554 A
1 A
59835555 ATTGGTAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (7 bp):
AGGGTTT
Found at i:59835547 original size:13 final size:14
Alignment explanation
Indices: 59835513--59835554 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
59835503 AAAACTTGAA
*
59835513 AGGGTTTAGGGTTT
1 AGGGTTTAAGGTTT
59835527 AGGGTTTAAGGTTT
1 AGGGTTTAAGGTTT
59835541 A-GGTTTAAGGTTT
1 AGGGTTTAAGGTTT
59835554 A
1 A
59835555 ATTGGTAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 13 0.48
14 14 0.52
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (14 bp):
AGGGTTTAAGGTTT
Found at i:59838336 original size:11 final size:11
Alignment explanation
Indices: 59838320--59838362 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
59838310 CCATTTTCTA
59838320 AATAAAATACT
1 AATAAAATACT
59838331 AAT-AAATATCT
1 AATAAAATA-CT
*
59838342 AAGTAAAATATT
1 AA-TAAAATACT
59838354 AATAAAATA
1 AATAAAATA
59838363 ATATTTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 14 0.50
12 4 0.14
13 5 0.18
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATACT
Found at i:59838348 original size:23 final size:23
Alignment explanation
Indices: 59838316--59838359 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
59838306 ACTACCATTT
59838316 TCTAAATAAAATACTAATAAATA
1 TCTAAATAAAATACTAATAAATA
* *
59838339 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATACTAATAAA
59838360 ATAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATACTAATAAATA
Found at i:59842022 original size:21 final size:21
Alignment explanation
Indices: 59841996--59842035 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
59841986 ATAATTAAGT
*
59841996 ATATTTGATGGTTAAAATTTG
1 ATATTTGAAGGTTAAAATTTG
*
59842017 ATATTTGAAGTTTAAAATT
1 ATATTTGAAGGTTAAAATT
59842036 GTATAGTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (21 bp):
ATATTTGAAGGTTAAAATTTG
Found at i:59843084 original size:29 final size:29
Alignment explanation
Indices: 59843052--59843111 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
59843042 TAGTGATTTA
59843052 TAAA-AATTGAAT-ACAACCAAAGTTTAATG
1 TAAATAATTGAATCA-AACCAAAGTTT-ATG
* *
59843081 TAAATAATTGTATCAAATCAAAGTTTATG
1 TAAATAATTGAATCAAACCAAAGTTTATG
59843110 TA
1 TA
59843112 TAACATTGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 9 0.33
30 17 0.63
31 1 0.04
ACGTcount: A:0.48, C:0.08, G:0.10, T:0.33
Consensus pattern (29 bp):
TAAATAATTGAATCAAACCAAAGTTTATG
Done.