Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 198 of 199
Found at i:57561147 original size:29 final size:30
Alignment explanation
Indices: 57561088--57561145 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
57561078 TCCGAGCCTT
*
57561088 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
57561118 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
57561146 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:57561376 original size:13 final size:13
Alignment explanation
Indices: 57561358--57561388 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
57561348 TTCCAGCAAC
57561358 TATGAATTTATTT
1 TATGAATTTATTT
57561371 TATGAATTTATTT
1 TATGAATTTATTT
*
57561384 GATGA
1 TATGA
57561389 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:57561558 original size:50 final size:50
Alignment explanation
Indices: 57561483--57561625 Score: 196
Period size: 50 Copynumber: 2.8 Consensus size: 50
57561473 ATTTGGGTAA
* * *
57561483 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATG
* * *
57561533 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATG
** *
57561583 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
57561626 TGTTATTATC
Statistics
Matches: 80, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 46 0.57
51 34 0.43
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAACATG
Found at i:57577132 original size:25 final size:25
Alignment explanation
Indices: 57577078--57577181 Score: 79
Period size: 25 Copynumber: 4.2 Consensus size: 25
57577068 GTCACAATAA
* *
57577078 CTTTCCAGATAATACGCCATA-ATGG
1 CTTTTCAGATAATACGCCACATA-GG
* *
57577103 TTTTTCAGATAATACTCCACATAGG
1 CTTTTCAGATAATACGCCACATAGG
* * * *
57577128 CTTTTCAAATAACT-TGACACAAAGG
1 CTTTTCAGATAA-TACGCCACATAGG
*
57577153 C-TTTCTAGACAATACGCCACATAGG
1 CTTTTC-AGATAATACGCCACATAGG
57577178 CTTT
1 CTTT
57577182 GTTTGGTTTA
Statistics
Matches: 59, Mismatches: 15, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
24 5 0.08
25 50 0.85
26 4 0.07
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (25 bp):
CTTTTCAGATAATACGCCACATAGG
Found at i:57577653 original size:6 final size:6
Alignment explanation
Indices: 57577642--57577669 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
57577632 CACTTACACG
57577642 CACGCA CACGCA CACGCA CACGCA CACG
1 CACGCA CACGCA CACGCA CACGCA CACG
57577670 TATACATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.50, G:0.18, T:0.00
Consensus pattern (6 bp):
CACGCA
Found at i:57580863 original size:26 final size:25
Alignment explanation
Indices: 57580834--57580911 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 25
57580824 GTGATGGAGG
57580834 TTATTTATTTTAAATTGCTGTGTATA
1 TTATTTATTTTAAATTG-TGTGTATA
* * * *
57580860 TTATTCATTTTAATTTGTTTTGCATA
1 TTATTTATTTTAAATTG-TGTGTATA
*
57580886 TTATTTACTTTAAAATTGTGT-TATA
1 TTATTTA-TTTTAAATTGTGTGTATA
57580911 T
1 T
57580912 ATTATGTCGT
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
25 4 0.10
26 29 0.71
27 8 0.20
ACGTcount: A:0.27, C:0.05, G:0.09, T:0.59
Consensus pattern (25 bp):
TTATTTATTTTAAATTGTGTGTATA
Found at i:57583666 original size:20 final size:20
Alignment explanation
Indices: 57583625--57583667 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
57583615 TTGTTTGGAA
**
57583625 CTTTTTCCAGGATTCTTGAT
1 CTTTTTCCAGGATTCTCCAT
*
57583645 CTTTTTCTAGGATTCTCCAT
1 CTTTTTCCAGGATTCTCCAT
57583665 CTT
1 CTT
57583668 AAAATATCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.23, G:0.12, T:0.51
Consensus pattern (20 bp):
CTTTTTCCAGGATTCTCCAT
Found at i:57584115 original size:31 final size:31
Alignment explanation
Indices: 57584072--57584133 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
57584062 AAAAATATAA
57584072 TTATTAATTATTGAATTATTGCAAAAGAAGGC
1 TTATTAATTATTGAATTATTG-AAAAGAAGGC
57584104 TTATT-ATTATTGAATTATTGAAAAGAAGGC
1 TTATTAATTATTGAATTATTGAAAAGAAGGC
57584134 CAAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 10 0.33
31 15 0.50
32 5 0.17
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.39
Consensus pattern (31 bp):
TTATTAATTATTGAATTATTGAAAAGAAGGC
Found at i:57605380 original size:13 final size:13
Alignment explanation
Indices: 57605362--57605387 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57605352 TATTCTATAC
57605362 TTGTGAAATTAAT
1 TTGTGAAATTAAT
57605375 TTGTGAAATTAAT
1 TTGTGAAATTAAT
57605388 ATTCAACTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
TTGTGAAATTAAT
Found at i:57614183 original size:30 final size:29
Alignment explanation
Indices: 57614141--57614197 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
57614131 TTAGTTAGAC
57614141 ATGATAATACATA-TAAAAATATAAAAATA
1 ATGATAATACATACT-AAAATATAAAAATA
*
57614170 ATGATACATACATACTAATATATAAAAA
1 ATGATA-ATACATACTAAAATATAAAAA
57614198 AGTATTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 6 0.24
30 18 0.72
31 1 0.04
ACGTcount: A:0.61, C:0.07, G:0.04, T:0.28
Consensus pattern (29 bp):
ATGATAATACATACTAAAATATAAAAATA
Found at i:57615342 original size:16 final size:15
Alignment explanation
Indices: 57615314--57615348 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
57615304 AAACCATGAA
*
57615314 AAAAGAAAGGAAAAC
1 AAAAGAAAAGAAAAC
57615329 AAAAGAAAAAGAAAAC
1 AAAAG-AAAAGAAAAC
57615345 AAAA
1 AAAA
57615349 ATAATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAGAAAAC
Found at i:57615972 original size:17 final size:17
Alignment explanation
Indices: 57615950--57615985 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
57615940 TAAATGAATA
57615950 TTCAA-TAAATTAATAAT
1 TTCAATTAAA-TAATAAT
57615967 TTCAATTAAATAATAAT
1 TTCAATTAAATAATAAT
57615984 TT
1 TT
57615986 TTCGGTCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (17 bp):
TTCAATTAAATAATAAT
Found at i:57618059 original size:3 final size:3
Alignment explanation
Indices: 57618046--57618136 Score: 78
Period size: 3 Copynumber: 30.3 Consensus size: 3
57618036 ATCATTTTGT
*
57618046 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTTA CTA TTA TTA TCT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA
* * * * * * *
57618091 CTA TTA TTG TTA GTA TTA TTA CTA CTA TTA TTA TTA CTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
57618137 ATTTATACCT
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
2 3 0.04
3 63 0.90
4 4 0.06
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:57618066 original size:12 final size:12
Alignment explanation
Indices: 57618052--57618136 Score: 89
Period size: 12 Copynumber: 6.8 Consensus size: 12
57618042 TTGTTTATTT
*
57618052 TATTATTATTAT
1 TATTATTATTAC
57618064 TATTATTATTTAC
1 TATTATTA-TTAC
57618077 TATTATTATCTTTAC
1 TATTATTA---TTAC
* *
57618092 TATTATTGTTAG
1 TATTATTATTAC
*
57618104 TATTATTACTAC
1 TATTATTATTAC
57618116 TATTATTATTAC
1 TATTATTATTAC
*
57618128 TATCATTAT
1 TATTATTAT
57618137 ATTTATACCT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
12 39 0.63
13 11 0.18
15 12 0.19
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:57633745 original size:12 final size:13
Alignment explanation
Indices: 57633714--57633742 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
57633704 GTTTGTATTC
57633714 TTTTATTTGTGCA
1 TTTTATTTGTGCA
57633727 TTTTATTTGTGCA
1 TTTTATTTGTGCA
57633740 TTT
1 TTT
57633743 ATTATTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.66
Consensus pattern (13 bp):
TTTTATTTGTGCA
Found at i:57634916 original size:4 final size:4
Alignment explanation
Indices: 57634907--57634936 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
57634897 TCTACTTCGA
57634907 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
57634937 TTGTCGTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:57639075 original size:106 final size:106
Alignment explanation
Indices: 57638932--57639156 Score: 353
Period size: 106 Copynumber: 2.1 Consensus size: 106
57638922 ACCTCTTTTT
** * * * *
57638932 AGGATTAAGTAG-GTTGCCAATGGTGATATTGTGCTTAAGGTGTCTATGTTTGGTTTTAATTTGA
1 AGGATTAAGTAGAGTTGAAAATAGTGATATTGTCCTTAAGGTGTCTATGCTTGGTTTTAACTTGA
* * *
57638996 TTTTTATCTCCCTACTTTGAGGAGAGCTCACGAAATTTGAC
66 ATGTTATCTCCCTACTTCGAGGAGAGCTCACGAAATTTGAC
57639037 AGGATTAAGTAGAGTTGAAAATAGTGATATTGTCCTTAAGGTGTCTATGCTTGGTTTTAACTTGA
1 AGGATTAAGTAGAGTTGAAAATAGTGATATTGTCCTTAAGGTGTCTATGCTTGGTTTTAACTTGA
57639102 ATGTTATCTCCCTACTTCGAGGAGAGCTCACGAAATTTGAC
66 ATGTTATCTCCCTACTTCGAGGAGAGCTCACGAAATTTGAC
*
57639143 GGGATTAAGTAGAG
1 AGGATTAAGTAGAG
57639157 ATAAATTGAT
Statistics
Matches: 109, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
105 12 0.11
106 97 0.89
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.36
Consensus pattern (106 bp):
AGGATTAAGTAGAGTTGAAAATAGTGATATTGTCCTTAAGGTGTCTATGCTTGGTTTTAACTTGA
ATGTTATCTCCCTACTTCGAGGAGAGCTCACGAAATTTGAC
Found at i:57643203 original size:9 final size:9
Alignment explanation
Indices: 57643185--57643215 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
57643175 TTTGGTTAAA
*
57643185 AATTAACCG
1 AATTACCCG
57643194 AATTACCCG
1 AATTACCCG
57643203 AATTACCCG
1 AATTACCCG
57643212 AATT
1 AATT
57643216 GAATCACTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTACCCG
Found at i:57643245 original size:17 final size:17
Alignment explanation
Indices: 57643223--57643285 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
57643213 ATTGAATCAC
57643223 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*** *
57643240 TACATAAGTCTTTGAATCAC
1 TACATAA-T-TAAAAAT-AT
*
57643260 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
57643277 TACATAATT
1 TACATAATT
57643286 CTTGAAATTA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
17 17 0.50
18 4 0.12
19 5 0.15
20 8 0.24
ACGTcount: A:0.49, C:0.13, G:0.03, T:0.35
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:57643260 original size:37 final size:37
Alignment explanation
Indices: 57643214--57643288 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
57643204 ATTACCCGAA
*
57643214 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
57643251 TTGAATCACTACATAATTAAAAACATTACATAATTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
57643288 T
1 T
57643289 GAAATTAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:57643494 original size:44 final size:45
Alignment explanation
Indices: 57643426--57643524 Score: 173
Period size: 45 Copynumber: 2.2 Consensus size: 45
57643416 AGAGTTAGAC
*
57643426 TTTAGTTTTATTTTTATTGAGTT-GGTAATTGGGTAGACTTTAGT
1 TTTAGTTTTAGTTTTATTGAGTTGGGTAATTGGGTAGACTTTAGT
*
57643470 TTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGGTAGACTTTAGT
1 TTTAGTTTTAGTTTTATTGAGTTGGGTAATTGGGTAGACTTTAGT
57643515 TTTAGTTTTA
1 TTTAGTTTTA
57643525 TTGGGTTGAG
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
44 21 0.40
45 31 0.60
ACGTcount: A:0.19, C:0.02, G:0.24, T:0.55
Consensus pattern (45 bp):
TTTAGTTTTAGTTTTATTGAGTTGGGTAATTGGGTAGACTTTAGT
Found at i:57643515 original size:39 final size:39
Alignment explanation
Indices: 57643421--57643541 Score: 154
Period size: 39 Copynumber: 3.0 Consensus size: 39
57643411 ACTTAAGAGT
* *
57643421 TAGACTTTAGTTTTATTTTTATTGAGTT-GGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
57643459 TAGACTTTAGTTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGAC------TTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
*
57643504 TAGACTTTAGTTTTAGTTTTATTGGGTTGAGTAATTGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGG
57643542 ATTGGGTTGG
Statistics
Matches: 73, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
38 5 0.07
39 32 0.44
44 21 0.29
45 15 0.21
ACGTcount: A:0.20, C:0.02, G:0.26, T:0.51
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:57643556 original size:17 final size:16
Alignment explanation
Indices: 57643524--57643574 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 16
57643514 TTTTAGTTTT
57643524 ATTGGGTTGAGTAATTGG
1 ATTGGGTTG-GTAATT-G
57643542 ATTGGGTTGGTAATTG
1 ATTGGGTTGGTAATTG
57643558 AGTTGGGTTGGATAATT
1 A-TTGGGTTGG-TAATT
57643575 TTATTTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.06
17 15 0.48
18 14 0.45
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (16 bp):
ATTGGGTTGGTAATTG
Found at i:57644502 original size:23 final size:23
Alignment explanation
Indices: 57644468--57644511 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
57644458 TTCTACCCAT
57644468 AATTATCATCTCAACA-CAAAGG
1 AATTATCATCTCAACATCAAAGG
* *
57644490 AATTGATCTTCTCTACATCAAA
1 AATT-ATCATCTCAACATCAAA
57644512 CCAAATCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.30
Consensus pattern (23 bp):
AATTATCATCTCAACATCAAAGG
Found at i:57646857 original size:6 final size:6
Alignment explanation
Indices: 57646846--57646887 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
57646836 CAAGAGCAGT
* *
57646846 ACCAGC ACCAGC ACCAAC ACCAAC ACCAAC ACCAAC ACCAAC
1 ACCAAC ACCAAC ACCAAC ACCAAC ACCAAC ACCAAC ACCAAC
57646888 CCCCTCCCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.45, C:0.50, G:0.05, T:0.00
Consensus pattern (6 bp):
ACCAAC
Found at i:57649292 original size:13 final size:13
Alignment explanation
Indices: 57649274--57649298 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57649264 CTTAAACATG
57649274 ATGTTAATATATC
1 ATGTTAATATATC
57649287 ATGTTAATATAT
1 ATGTTAATATAT
57649299 TTTATATTTT
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:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
ATGTTAATATATC
Found at i:57649440 original size:17 final size:16
Alignment explanation
Indices: 57649407--57649442 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
57649397 CCCACTCATA
57649407 TTATTTTTTTAAATAT
1 TTATTTTTTTAAATAT
*
57649423 TTATTTTATTTTAATAT
1 TTATTTT-TTTAAATAT
57649440 TTA
1 TTA
57649443 ATAATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTTTTTTAAATAT
Found at i:57651752 original size:18 final size:17
Alignment explanation
Indices: 57651725--57651762 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
57651715 ATTTTAATTA
57651725 TTTTTTAAAATA-TATTT
1 TTTTTTAAAA-AGTATTT
57651742 TTTTATTAAAAAGTATTT
1 TTTT-TTAAAAAGTATTT
57651760 TTT
1 TTT
57651763 GAGGGTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
TTTTTTAAAAAGTATTT
Found at i:57652612 original size:3 final size:3
Alignment explanation
Indices: 57652604--57652629 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
57652594 ATGGGAAGCT
57652604 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
57652630 TTGGAAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:57656106 original size:52 final size:52
Alignment explanation
Indices: 57656037--57656140 Score: 172
Period size: 52 Copynumber: 2.0 Consensus size: 52
57656027 GGAGCCGTTG
* *
57656037 GGATTTTTACCACTGGGGTGTGGGGTAGTCATTATGGAAAACGCTTCCAGCT
1 GGATTTTCACCACTGGGGTGTGGGGTAGCCATTATGGAAAACGCTTCCAGCT
* *
57656089 GGATTTTCACCATTGGGGTGTGGGGTAGCCATTATGGAAAATGCTTCCAGCT
1 GGATTTTCACCACTGGGGTGTGGGGTAGCCATTATGGAAAACGCTTCCAGCT
57656141 AGATGCGTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (52 bp):
GGATTTTCACCACTGGGGTGTGGGGTAGCCATTATGGAAAACGCTTCCAGCT
Found at i:57656215 original size:28 final size:29
Alignment explanation
Indices: 57656161--57656216 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
57656151 TTGTTTTTTG
*
57656161 GACCTAATTCAGTAAATTTTGAAAAAATC
1 GACCTAATCCAGTAAATTTTGAAAAAATC
* *
57656190 GACCTAATCCAGTAATTTTTCAAAAAA
1 GACCTAATCCAGTAAATTTTGAAAAAA
57656217 AAACAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (29 bp):
GACCTAATCCAGTAAATTTTGAAAAAATC
Found at i:57658433 original size:5 final size:5
Alignment explanation
Indices: 57658423--57658455 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
57658413 ACACACAAAA
57658423 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT
57658456 GTTATATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATTAT
Found at i:57658567 original size:21 final size:19
Alignment explanation
Indices: 57658533--57658574 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
57658523 TTCAAAATTT
*
57658533 AAGCAAATAAAAAGAGATAG
1 AAGCAAAAAAAAAGAGA-AG
57658553 AAGCATAAAAAAAAGAGAAG
1 AAGCA-AAAAAAAAGAGAAG
57658573 AA
1 AA
57658575 CATGACAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.69, C:0.05, G:0.19, T:0.07
Consensus pattern (19 bp):
AAGCAAAAAAAAAGAGAAG
Found at i:57666483 original size:3 final size:3
Alignment explanation
Indices: 57666475--57666557 Score: 157
Period size: 3 Copynumber: 27.7 Consensus size: 3
57666465 AGGAGCCTTT
*
57666475 TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
57666523 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
57666558 TAACAAATGA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:57668717 original size:113 final size:114
Alignment explanation
Indices: 57668558--57669207 Score: 687
Period size: 113 Copynumber: 5.7 Consensus size: 114
57668548 TGATTTCCAT
* * *
57668558 AAAGCGCCGC-AAAATACCTAAGCCCAACGACGTCGTCTTTC-GAGCTTTCGGGGATTTAGCGAC
1 AAAGCGCCACAAAAAAACCTAAGCCCAACGACGTCGT-TTTCTGAGCTTTCGGGGATTTAGCGGC
* * * *
57668621 GTTTTTAAGAAAGCGCCGCTAATGCTCAAGGCTTTCGCGACGTTTTCGAG
65 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
* * *
57668671 AAAGCGCCACAAAAAAACCAAAGCCC-AGGACGTCGTTTTCTGAGCTTTCGGGGATTTAGTGGCG
1 AAAGCGCCACAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCG
* *
57668735 TTTTTAAGTAAA-CGCTGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGGG
66 TTTTTAAG-AAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
* * * * *
57668784 AAAGCACCGA-AAAAATAA-CTAAGCCCAACGATGCCGTTTTCTGAGCTTTCGAGGATTTAGTGG
1 AAAGCGCC-ACAAAAA-AACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGG
*
57668847 CGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
64 CGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
* * * * *
57668898 AAAGTGCCAC-AAAAAACCAAAGCCCAACGAC-ACTGTTTTTTGAGCTTTCGGGGATTTAGTGGC
1 AAAGCGCCACAAAAAAACCTAAGCCCAACGACGTC-GTTTTCTGAGCTTTCGGGGATTTAGCGGC
** * * *
57668961 GTTTTTAAGTGAGCGCCACTAATG-TACAGTGCTTTAGTGGCGTTTTTGA-
65 GTTTTTAAGAAAGCGCCGCTAATGCT-CAGGGCTTTAGCGGCGTTTTTGAG
* ** * * *
57669010 AGAAGCGTCACAACAAAAA-CTAAGCCCAACGACACCATTTTCTGA-CAATTCGTGGGCTTTAGC
1 A-AAGCGCCACAA-AAAAACCTAAGCCCAACGACGTCGTTTTCTGAGC-TTTCG-GGGATTTAGC
* * * **
57669073 GGCG-TTTTAAGAATGCGCTGCTAATGCTTAGGGCTTTAGCGGCGTTTTTGTT
62 GGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
** * * * ** *
57669125 AAAGCGCTGCAAAAAAACCTAAGCCCAACGGCGTCGTTTTCTAAACTTTTAGGGCTTTAGCGGCG
1 AAAGCGCCACAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCG
*
57669190 TTTTTAAAAAAGCGCCGC
66 TTTTTAAGAAAGCGCCGC
57669208 AAAAACCTTT
Statistics
Matches: 451, Mismatches: 64, Indels: 43
0.81 0.11 0.08
Matches are distributed among these distances:
112 9 0.02
113 213 0.47
114 208 0.46
115 21 0.05
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (114 bp):
AAAGCGCCACAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTTTCGGGGATTTAGCGGCG
TTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAG
Found at i:57668859 original size:114 final size:112
Alignment explanation
Indices: 57668575--57669207 Score: 650
Period size: 114 Copynumber: 5.6 Consensus size: 112
57668565 CGCAAAATAC
* * * *
57668575 CTAAGCCCAACGACGTCGTCTTTC-GAGCTTTCGGGGATTTAGCGACGTTTTTAAGAAAGCGCCG
1 CTAAGCCCAACGACGCCGT-TTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCG
* * * *
57668639 CTAATGCTCAAGGCTTTCGCGACGTTTTCGAGAAAGCGCCACAAAAAAA
65 CTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCA-AAAAAAA
* * * * *
57668688 CCAAAGCCC-AGGACGTCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAACGCTG
1 -CTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCG
* *
57668752 CTAATGCTCAGGGCTTTAGCGGCGTTTTTGGGAAAGCACCGAAAAAATAA
65 CTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCC-AAAAAA-AA
* *
57668802 CTAAGCCCAACGATGCCGTTTTCTGAGCTTTCGAGGATTTAGTGGCGTTTTTAAGTAAGCGCCGC
1 CTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGC
* *
57668867 TAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGTGCCACAAAAAAC
66 TAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCA-AAAAAAA
* * * * * *
57668915 CAAAGCCCAACGACACTGTTTTTTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTGAGCGCCAC
1 CTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGC
* * *
57668980 TAATG-TACAGTGCTTTAGTGGCGTTTTTGA-AGAAGCGTCACAACAAAAA
66 TAATGCT-CAGGGCTTTAGCGGCGTTTTTGAGA-AAGCG-C-CAAAAAAAA
* * * * *
57669029 CTAAGCCCAACGACACCATTTTCTGA-CAATTCGTGGGCTTTAGCGGCG-TTTTAAG-AATGCGC
1 CTAAGCCCAACGACGCCGTTTTCTGAGC-TTTCG-GGGATTTAGTGGCGTTTTTAAGTAA-GCGC
* * ** *
57669091 TGCTAATGCTTAGGGCTTTAGCGGCGTTTTTGTTAAAGCGCTGCAAAAAAAC
63 CGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGC--CAAAAAAAA
* * * * ** * * **
57669143 CTAAGCCCAACGGCGTCGTTTTCTAAACTTTTAGGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGC
1 CTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGC
57669208 AAAAACCTTT
Statistics
Matches: 437, Mismatches: 64, Indels: 36
0.81 0.12 0.07
Matches are distributed among these distances:
112 6 0.01
113 196 0.45
114 216 0.49
115 19 0.04
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (112 bp):
CTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAGCGCCGC
TAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCAAAAAAAA
Found at i:57668944 original size:227 final size:227
Alignment explanation
Indices: 57668568--57669196 Score: 704
Period size: 227 Copynumber: 2.8 Consensus size: 227
57668558 AAAGCGCCGC
* * *
57668568 AAAATACCTAAGCCCAACGACGTCGTCTTTC-GAGCTTTCGGGGATTTAGCGACGTTTTTAAGAA
1 AAAATAACTAAGCCCAACGACGCCGT-TTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAG-A
* * * *
57668632 AGCGCCGCTAATGCTCAAGGCTTTCGCGACGTTTTCGAGAAAGCGCCACAAAAAAACCAAAGCCC
64 AGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCAC-AAAAAACCAAAGCCC
* * **
57668697 -AGGACGTCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAACGCTGCTAATGCT-
128 AACGACCTCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAACGCCACTAATG-TA
*
57668760 CAGGGCTTTAGCGGCGTTTTTG-GGAAAGC-AC-CGAA
192 CAGGGCTTTAGCGGCGTTTTTGAAG-AAGCGACAC-AA
* * *
57668795 AAAATAACTAAGCCCAACGATGCCGTTTTCTGAGCTTTCGAGGATTTAGTGGCGTTTTTAAGTAA
1 AAAATAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAG-AA
*
57668860 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGTGCCACAAAAAACCAAAGCCCAA
65 GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAACCAAAGCCCAA
* * *
57668925 CGACACT-GTTTTTTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTGAGCGCCACTAATGTACA
130 CGAC-CTCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAACGCCACTAATGTACA
* * *
57668989 GTGCTTTAGTGGCGTTTTTGAAGAAGCGTCACAA
194 GGGCTTTAGCGGCGTTTTTGAAGAAGCGACACAA
* * * * *
57669023 CAAA-AACTAAGCCCAACGACACCATTTTCTGA-CAATTCGTGGGCTTTAGCGGCG-TTTTAAGA
1 AAAATAACTAAGCCCAACGACGCCGTTTTCTGAGC-TTTCG-GGGATTTAGCGGCGTTTTTAAGA
* * ** *
57669085 ATGCGCTGCTAATGCTTAGGGCTTTAGCGGCGTTTTTGTTAAAGCGCTGCA-AAAAAACCTAAGC
64 A-GCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGC--CACAAAAAACCAAAGC
* * * * ** * *
57669149 CCAACGGCGTCGTTTTCTAAACTTTTAGGGCTTTAGCGGCGTTTTTAA
126 CCAACGACCTCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAA
57669197 AAAAGCGCCG
Statistics
Matches: 343, Mismatches: 46, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
226 23 0.07
227 249 0.73
228 68 0.20
229 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.28
Consensus pattern (227 bp):
AAAATAACTAAGCCCAACGACGCCGTTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAG
CGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCACAAAAAACCAAAGCCCAAC
GACCTCGTTTTCTGAGCTTTCGGGGATTTAGTGGCGTTTTTAAGTAAACGCCACTAATGTACAGG
GCTTTAGCGGCGTTTTTGAAGAAGCGACACAA
Found at i:57669564 original size:14 final size:15
Alignment explanation
Indices: 57669536--57669568 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
57669526 AACGTTTATA
57669536 GATTATGGAATTAGG
1 GATTATGGAATTAGG
57669551 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
57669565 GATT
1 GATT
57669569 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:57669605 original size:14 final size:15
Alignment explanation
Indices: 57669573--57669622 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 15
57669563 GGGATTCTGG
57669573 TTTAAGGGTT-GTA-A
1 TTTAAGGGTTAG-AGA
57669587 TTTAAGGGTTAGAGA
1 TTTAAGGGTTAGAGA
* *
57669602 -TTAAGAGTTAGGGA
1 TTTAAGGGTTAGAGA
57669616 TTTAAGG
1 TTTAAGG
57669623 TTTATGGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 23 0.77
15 7 0.23
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (15 bp):
TTTAAGGGTTAGAGA
Found at i:57669725 original size:80 final size:82
Alignment explanation
Indices: 57669641--57669797 Score: 230
Period size: 80 Copynumber: 1.9 Consensus size: 82
57669631 TTTGGTGTCA
* * *
57669641 GGTTAGGATTTAGGGTTTAGATTAATTAATGTATTTTAATTT-T-TATGAAATAAGGTTTAAGGG
1 GGTTAGGATTTAAGGTTTAGATTAATTAATAT-TTTTAATTTGTATATGAAATAAGATTTAAGGG
57669704 TTAG-GGTTAGGGATTTG
65 TTAGTGGTTAGGGATTTG
* * *
57669721 GGTTAGGATTTAAGGTTTTGATTAATTAATATTTTTAATTTGTATATTAAATAAGATTTAGGGGT
1 GGTTAGGATTTAAGGTTTAGATTAATTAATATTTTTAATTTGTATATGAAATAAGATTTAAGGGT
57669786 TAGTGGTTAGGG
66 TAGTGGTTAGGG
57669798 GTTAGTGGTT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
79 9 0.13
80 30 0.44
81 21 0.31
82 8 0.12
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (82 bp):
GGTTAGGATTTAAGGTTTAGATTAATTAATATTTTTAATTTGTATATGAAATAAGATTTAAGGGT
TAGTGGTTAGGGATTTG
Found at i:57669802 original size:21 final size:21
Alignment explanation
Indices: 57669778--57669823 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
57669768 TAAATAAGAT
*
57669778 TTAG-GGGTTAGTGGTTAGGGG
1 TTAGTGGGTTAG-GGTTAAGGG
*
57669799 TTAGTGGTTTAGGGTTAAGGG
1 TTAGTGGGTTAGGGTTAAGGG
57669820 TTAG
1 TTAG
57669824 AAGTTAAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.17, C:0.00, G:0.46, T:0.37
Consensus pattern (21 bp):
TTAGTGGGTTAGGGTTAAGGG
Found at i:57669815 original size:14 final size:15
Alignment explanation
Indices: 57669777--57669812 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
57669767 TTAAATAAGA
57669777 TTTAGGGGTTAGTGG
1 TTTAGGGGTTAGTGG
57669792 -TTAGGGGTTAGTGG
1 TTTAGGGGTTAGTGG
57669806 TTTAGGG
1 TTTAGGG
57669813 TTAAGGGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.14, C:0.00, G:0.47, T:0.39
Consensus pattern (15 bp):
TTTAGGGGTTAGTGG
Found at i:57670219 original size:21 final size:21
Alignment explanation
Indices: 57670194--57670234 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
57670184 GATTTTTGGT
* *
57670194 TTTGACTTTTAGGGTTTGGGA
1 TTTGACGTTTAGAGTTTGGGA
*
57670215 TTTGAGGTTTAGAGTTTGGG
1 TTTGACGTTTAGAGTTTGGG
57670235 GTTTATGGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.02, G:0.37, T:0.46
Consensus pattern (21 bp):
TTTGACGTTTAGAGTTTGGGA
Found at i:57670244 original size:21 final size:21
Alignment explanation
Indices: 57670201--57670268 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
57670191 GGTTTTGACT
* *
57670201 TTTAGGGTTTGGGATTTGA-GG
1 TTTAGAGTTTGGGGTTT-ATGG
57670222 TTTAGAGTTTGGGGTTTATGG
1 TTTAGAGTTTGGGGTTTATGG
*
57670243 TTT-G-GTTTTGTGGTTTATGG
1 TTTAGAG-TTTGGGGTTTATGG
57670263 TTTAGA
1 TTTAGA
57670269 ATTTATGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
19 1 0.03
20 18 0.45
21 21 0.52
ACGTcount: A:0.13, C:0.00, G:0.37, T:0.50
Consensus pattern (21 bp):
TTTAGAGTTTGGGGTTTATGG
Found at i:57671313 original size:147 final size:148
Alignment explanation
Indices: 57671162--57671464 Score: 324
Period size: 148 Copynumber: 2.1 Consensus size: 148
57671152 TGTAATTATG
* * * **
57671162 TTTATTGAAATGTTGTCGTTTTGTCTATGGTATTAGTGGCGTTTTTAT-GAAAACGCCACAAGCT
1 TTTATTGAAATGCTGCCATTTTGTAAATGGTATTAGTGGCGTTTTTATCGAAAACGCCACAAGCT
* * * *
57671226 TGAGTTAACTGTTGGGGAAACGACTTCG-TTTGAGCTTATAGTTAGTCGCGCTTTA-CTCAAAAC
66 TGAGGTAACTGTTGAGGAAACGACTGCGTTTTGA-CTTATAGTTAGTCGCGCTTCAGCTC-AAAC
* *
57671289 GCCGCAAAATTGTTCTAACT
129 GCCGCAAAAATGTTCTAACA
** * * * *** *
57671309 TTTATAAAAATGCTGCCATTTTGTAAATGTTATTAGTGGCGTTTTTTTCGAAAATGCCATGGGTT
1 TTTATTGAAATGCTGCCATTTTGTAAATGGTATTAGTGGCGTTTTTATCGAAAACGCCACAAGCT
* * * * * *
57671374 TGAGGTAAGTGTTGATGAAGCGACTGCGTTTTGATTTATAGTTAGTGGCGCTTCAGTTCAAACGC
66 TGAGGTAACTGTTGAGGAAACGACTGCGTTTTGACTTATAGTTAGTCGCGCTTCAGCTCAAACGC
*
57671439 CGCAAAAATGTTTTAACA
131 CGCAAAAATGTTCTAACA
57671457 TTTATTGA
1 TTTATTGA
57671465 TACGAGGCCG
Statistics
Matches: 124, Mismatches: 29, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
147 39 0.31
148 78 0.63
149 7 0.06
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (148 bp):
TTTATTGAAATGCTGCCATTTTGTAAATGGTATTAGTGGCGTTTTTATCGAAAACGCCACAAGCT
TGAGGTAACTGTTGAGGAAACGACTGCGTTTTGACTTATAGTTAGTCGCGCTTCAGCTCAAACGC
CGCAAAAATGTTCTAACA
Found at i:57672936 original size:15 final size:15
Alignment explanation
Indices: 57672916--57672947 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
57672906 AGGGTTGAAG
57672916 TATTTGGTACTAATT
1 TATTTGGTACTAATT
57672931 TATTTGGTACTAATT
1 TATTTGGTACTAATT
57672946 TA
1 TA
57672948 CTGTTATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.53
Consensus pattern (15 bp):
TATTTGGTACTAATT
Found at i:57673748 original size:20 final size:19
Alignment explanation
Indices: 57673703--57673758 Score: 71
Period size: 18 Copynumber: 3.0 Consensus size: 19
57673693 AAATATCTTA
*
57673703 TTAATATATATTTTAA-AG
1 TTAATATATATTTTAATAT
57673721 TTAATATATATTTTCAATAT
1 TTAATATATATTTT-AATAT
*
57673741 TTATTATAT-TTTTAATAT
1 TTAATATATATTTTAATAT
57673759 ATTTTTACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 19 0.56
19 6 0.18
20 9 0.26
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
TTAATATATATTTTAATAT
Found at i:57673925 original size:13 final size:13
Alignment explanation
Indices: 57673909--57674073 Score: 136
Period size: 13 Copynumber: 12.5 Consensus size: 13
57673899 TTACTAAAAT
*
57673909 TTACTTTAATATA
1 TTACTTAAATATA
*
57673922 TTACTTGAATATA
1 TTACTTAAATATA
*
57673935 TTACTTAAATAAA
1 TTACTTAAATATA
*
57673948 TTACTTAAATACA
1 TTACTTAAATATA
*
57673961 TTACTTACTAAAAT-
1 TTACTTA--AATATA
** *
57673975 TTGGTTAAATTTA
1 TTACTTAAATATA
*
57673988 TTACTTAAATATG
1 TTACTTAAATATA
*
57674001 TTACTTAAATACA
1 TTACTTAAATATA
*
57674014 TTACTTACTAAAAT-
1 TTACTTA--AATATA
** *
57674028 TTGTTTAAATTTA
1 TTACTTAAATATA
*
57674041 TTACTTAAATATG
1 TTACTTAAATATA
*
57674054 TTACTTAAATACA
1 TTACTTAAATATA
57674067 TTACTTA
1 TTACTTA
57674074 CTAAAATTTA
Statistics
Matches: 118, Mismatches: 28, Indels: 12
0.75 0.18 0.08
Matches are distributed among these distances:
12 6 0.05
13 96 0.81
14 10 0.08
15 6 0.05
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.46
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:57673990 original size:53 final size:53
Alignment explanation
Indices: 57673933--57674082 Score: 273
Period size: 53 Copynumber: 2.8 Consensus size: 53
57673923 TACTTGAATA
**
57673933 TATTACTTAAATAAATTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
*
57673986 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGTTTAAATT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
57674039 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTT
1 TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTT
57674083 AAGTATATAT
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 94 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.45
Consensus pattern (53 bp):
TATTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTGGTTAAATT
Found at i:57674266 original size:29 final size:32
Alignment explanation
Indices: 57674217--57674392 Score: 84
Period size: 33 Copynumber: 5.5 Consensus size: 32
57674207 TACGTACAAG
*
57674217 AACTTACATAACTTATTCAT-A-TT-TATATA
1 AACTTACATAACTTATACATAACTTATATATA
*
57674246 AACTTACATAAC-TATCACATAAACTTATATGTA
1 AACTTACATAACTTAT-ACAT-AACTTATATATA
* * *
57674279 AACTTACATAA-TACATAACTTATAATTTTTTTTATATA
1 AACTTACATAACT-TAT-AC--ATAA---CTTATATATA
* * *
57674317 AACTTACATAAC----ACATTACTTACATATT
1 AACTTACATAACTTATACATAACTTATATATA
* *
57674345 AACTTACATAAGTTATCTACA-AGCTTATATATA
1 AACTTACATAACTTA--TACATAACTTATATATA
*
57674378 AACTTGCATAACTTA
1 AACTTACATAACTTA
57674393 CGTAATAACA
Statistics
Matches: 109, Mismatches: 19, Indels: 34
0.67 0.12 0.21
Matches are distributed among these distances:
28 20 0.18
29 15 0.14
31 4 0.04
32 2 0.02
33 39 0.36
34 7 0.06
35 2 0.02
36 2 0.02
38 18 0.17
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.39
Consensus pattern (32 bp):
AACTTACATAACTTATACATAACTTATATATA
Found at i:57674439 original size:9 final size:9
Alignment explanation
Indices: 57674407--57674727 Score: 269
Period size: 9 Copynumber: 36.8 Consensus size: 9
57674397 ATAACATAAC
57674407 AACTTACAT
1 AACTTACAT
57674416 AA--TACAT
1 AACTTACAT
* *
57674423 AGCATACAT
1 AACTTACAT
57674432 AACTTACAT
1 AACTTACAT
*
57674441 AACTTAAAT
1 AACTTACAT
* *
57674450 ATCTTACAC
1 AACTTACAT
57674459 AACTTACAT
1 AACTTACAT
*
57674468 AACCTACAT
1 AACTTACAT
**
57674477 AA-TATATTT
1 AACT-TACAT
57674486 AACTTACAT
1 AACTTACAT
57674495 AACTTACAT
1 AACTTACAT
*
57674504 AA--TACAA
1 AACTTACAT
57674511 AACTTACAT
1 AACTTACAT
*
57674520 AACTTAAAT
1 AACTTACAT
* *
57674529 ATCTTACAC
1 AACTTACAT
57674538 AACTTACAT
1 AACTTACAT
*
57674547 AACCTACAT
1 AACTTACAT
57674556 AA--TACATTT
1 AACTTACA--T
57674565 AACTTACAT
1 AACTTACAT
57674574 AACTTACAT
1 AACTTACAT
57674583 AACTTACAT
1 AACTTACAT
*
57674592 AATACATA-AT
1 -A-ACTTACAT
57674602 AACTTAC--
1 AACTTACAT
57674609 AACTTACAT
1 AACTTACAT
*
57674618 AACATACAT
1 AACTTACAT
* **
57674627 TACTTTGAT
1 AACTTACAT
57674636 AACTTACAT
1 AACTTACAT
57674645 AACTTACAT
1 AACTTACAT
*
57674654 AA--TACAC
1 AACTTACAT
57674661 AACTTACAT
1 AACTTACAT
* *
57674670 AGCTTACTT
1 AACTTACAT
57674679 AA--TACAT
1 AACTTACAT
57674686 AACTTACAT
1 AACTTACAT
57674695 AACTT--AT
1 AACTTACAT
*
57674702 ACACATACAT
1 A-ACTTACAT
57674712 AACTTACAT
1 AACTTACAT
*
57674721 AATTTAC
1 AACTTAC
57674728 TTAATACATA
Statistics
Matches: 247, Mismatches: 43, Indels: 44
0.74 0.13 0.13
Matches are distributed among these distances:
7 38 0.15
8 7 0.03
9 187 0.76
10 7 0.03
11 8 0.03
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:57674465 original size:27 final size:27
Alignment explanation
Indices: 57674378--57674583 Score: 167
Period size: 27 Copynumber: 7.7 Consensus size: 27
57674368 CTTATATATA
* *
57674378 AACTTGCATAACTTACGTAATAACATA-AC
1 AACTTACATAACTTAC---ATATCATACAC
* *
57674407 AACTTACATAA--TACATAGCATACAT
1 AACTTACATAACTTACATATCATACAC
* *
57674432 AACTTACATAACTTAAATATCTTACAC
1 AACTTACATAACTTACATATCATACAC
* ***
57674459 AACTTACATAACCTACATAAT-ATATTT
1 AACTTACATAACTTACAT-ATCATACAC
*
57674486 AACTTACATAACTTACATA--ATACAA
1 AACTTACATAACTTACATATCATACAC
* *
57674511 AACTTACATAACTTAAATATCTTACAC
1 AACTTACATAACTTACATATCATACAC
* *
57674538 AACTTACATAACCTACATA--ATACATTT
1 AACTTACATAACTTACATATCATACA--C
57674565 AACTTACATAACTTACATA
1 AACTTACATAACTTACATA
57674584 ACTTACATAA
Statistics
Matches: 144, Mismatches: 25, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
24 7 0.05
25 37 0.26
26 1 0.01
27 87 0.60
28 2 0.01
29 10 0.07
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (27 bp):
AACTTACATAACTTACATATCATACAC
Found at i:57674516 original size:79 final size:79
Alignment explanation
Indices: 57674407--57674675 Score: 325
Period size: 79 Copynumber: 3.5 Consensus size: 79
57674397 ATAACATAAC
57674407 AACTTACATAA--TACATAGCATACATAACTTACATAACTTAAATATCTTACACAACTTACATAA
1 AACTTACATAACTTACATA--ATACATAACTTACATAACTTAAATATCTTACACAACTTACATAA
57674470 CCTACATAATATATTT
64 CCTACATAATATATTT
*
57674486 AACTTACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACTTACATAACC
1 AACTTACATAACTTACATAATACATAACTTACATAACTTAAATATCTTACACAACTTACATAACC
*
57674551 TACATAATACATTT
66 TACATAATATATTT
57674565 AACTTACATAACTTACATAACTTACATAA--TACATAA--T--A-A-CTT--ACAACTTACATAA
1 AACTTACATAACTTACATAA--TACATAACTTACATAACTTAAATATCTTACACAACTTACATAA
*
57674620 CATACAT--TACT-TTGAT
64 CCTACATAATA-TATT--T
* *
57674636 AACTTACATAACTTACATAATACACAACTTACATAGCTTA
1 AACTTACATAACTTACATAATACATAACTTACATAACTTA
57674676 CTTAATACAT
Statistics
Matches: 171, Mismatches: 7, Indels: 29
0.83 0.03 0.14
Matches are distributed among these distances:
69 10 0.06
71 46 0.27
73 4 0.02
74 1 0.01
75 1 0.01
77 1 0.01
79 96 0.56
81 12 0.07
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (79 bp):
AACTTACATAACTTACATAATACATAACTTACATAACTTAAATATCTTACACAACTTACATAACC
TACATAATATATTT
Found at i:57674669 original size:71 final size:68
Alignment explanation
Indices: 57674536--57674723 Score: 181
Period size: 71 Copynumber: 2.7 Consensus size: 68
57674526 AATATCTTAC
* *
57674536 ACAACTTACATAACCTACATAATACATT-TAACTTACATAACTTACATAACTTACATAATACATA
1 ACAACTTACATAACATACAT--TAC-TTATAACTTACATAACTTACATAA--TACACAATACATA
57674600 -ATAACTT
61 GATAACTT
57674607 ACAACTTACATAACATACATTACTTTGATAACTTACATAACTTACATAATACACAACTTACATAG
1 ACAACTTACATAACATACATTAC-TT-ATAACTTACATAACTTACATAATACACAA--TACATAG
* *
57674672 CTTACTT
62 ATAACTT
* * *
57674679 --AA--TACATAACTTACATAACTTATACACATACATAACTTACATAAT
1 ACAACTTACATAACATACATTACTTATA-ACTTACATAACTTACATAAT
57674724 TTACTTAATA
Statistics
Matches: 103, Mismatches: 8, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
66 3 0.03
67 21 0.20
68 15 0.15
69 11 0.11
70 2 0.02
71 46 0.45
72 5 0.05
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.32
Consensus pattern (68 bp):
ACAACTTACATAACATACATTACTTATAACTTACATAACTTACATAATACACAATACATAGATAA
CTT
Found at i:57676761 original size:21 final size:21
Alignment explanation
Indices: 57676735--57676807 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
57676725 TACAACTTAG
*
57676735 AGCAGAGGC-GACAGCGAGGGA
1 AGCAGAGGCTG-CAGCGAGAGA
57676756 AGCAGAGGCTGCAGCGAGAGA
1 AGCAGAGGCTGCAGCGAGAGA
* *
57676777 AGCAGAGGTTGCAGTGAGAGA
1 AGCAGAGGCTGCAGCGAGAGA
*
57676798 AACAGAGGCT
1 AGCAGAGGCT
57676808 CAAAAGAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 45 0.98
22 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.42, T:0.07
Consensus pattern (21 bp):
AGCAGAGGCTGCAGCGAGAGA
Found at i:57677258 original size:43 final size:42
Alignment explanation
Indices: 57677179--57677284 Score: 106
Period size: 43 Copynumber: 2.5 Consensus size: 42
57677169 GTTTTTCACA
* *
57677179 AAAGCGCCGCTAAA-AGTCATATTCTATAGCGTCGTTTGTGAAG
1 AAAGCGCCGCTAAAGA-TCATGTTCTATAGCGGCGTTT-TGAAG
* * ****
57677222 AAAGCGCCGCTAAAGATCATGTTCTTTCGCGGCGTTTTTCTT
1 AAAGCGCCGCTAAAGATCATGTTCTATAGCGGCGTTTTGAAG
*
57677264 AAAGCGCCGCTAAAGAACATG
1 AAAGCGCCGCTAAAGATCATG
57677285 ACATTTAGCG
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
42 21 0.40
43 31 0.58
44 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (42 bp):
AAAGCGCCGCTAAAGATCATGTTCTATAGCGGCGTTTTGAAG
Found at i:57678552 original size:20 final size:22
Alignment explanation
Indices: 57678509--57678554 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
57678499 AAGAGTAGAT
57678509 ATTATCTTATATTAGTTATAAA
1 ATTATCTTATATTAGTTATAAA
* *
57678531 ATTATTTTA-ATTA-TTATTAA
1 ATTATCTTATATTAGTTATAAA
57678551 ATTA
1 ATTA
57678555 CATTATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
21 4 0.18
22 8 0.36
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
ATTATCTTATATTAGTTATAAA
Found at i:57696491 original size:64 final size:64
Alignment explanation
Indices: 57696411--57696530 Score: 240
Period size: 64 Copynumber: 1.9 Consensus size: 64
57696401 GGACTACCTG
57696411 AGGAGCTGAAAGATTTTAGGCGGTTGTTAGATCAATGCTCAGAAGCCAATGTTAGTACTGCCTA
1 AGGAGCTGAAAGATTTTAGGCGGTTGTTAGATCAATGCTCAGAAGCCAATGTTAGTACTGCCTA
57696475 AGGAGCTGAAAGATTTTAGGCGGTTGTTAGATCAATGCTCAGAAGCCAATGTTAGT
1 AGGAGCTGAAAGATTTTAGGCGGTTGTTAGATCAATGCTCAGAAGCCAATGTTAGT
57696531 TACTTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (64 bp):
AGGAGCTGAAAGATTTTAGGCGGTTGTTAGATCAATGCTCAGAAGCCAATGTTAGTACTGCCTA
Found at i:57699371 original size:9 final size:9
Alignment explanation
Indices: 57699353--57699398 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
57699343 CGAAGAAACA
*
57699353 TCATCATCC
1 TCATCGTCC
57699362 TCATCGTCC
1 TCATCGTCC
*
57699371 TCATCGTCG
1 TCATCGTCC
* *
57699380 TCATCATCG
1 TCATCGTCC
57699389 TCATCGTCC
1 TCATCGTCC
57699398 T
1 T
57699399 TTTTGCAACC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.15, C:0.39, G:0.11, T:0.35
Consensus pattern (9 bp):
TCATCGTCC
Found at i:57702610 original size:16 final size:16
Alignment explanation
Indices: 57702589--57702624 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
57702579 TTTGGTTCGC
*
57702589 TGTATTGGATTAGAGG
1 TGTATTGGAATAGAGG
57702605 TGTATTGGAATAGAGG
1 TGTATTGGAATAGAGG
57702621 TGTA
1 TGTA
57702625 ATAGCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.36, T:0.36
Consensus pattern (16 bp):
TGTATTGGAATAGAGG
Found at i:57702877 original size:16 final size:16
Alignment explanation
Indices: 57702840--57702881 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
57702830 TTAATCATAT
*
57702840 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
57702856 TT-AAATATATTATAA
1 TTAAAATATATTATAA
57702871 TTAAAATATAT
1 TTAAAATATAT
57702882 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:57702888 original size:14 final size:15
Alignment explanation
Indices: 57702849--57702890 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
57702839 TTTAAACATA
*
57702849 ATTATTATTAAATAT
1 ATTATAATTAAATAT
57702864 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
57702878 A-TATAATTTAATA
1 ATTATAATTAAATA
57702891 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:57702940 original size:61 final size:61
Alignment explanation
Indices: 57702875--57703062 Score: 208
Period size: 61 Copynumber: 3.1 Consensus size: 61
57702865 TTATAATTAA
57702875 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
57702936 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
57702995 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
57703056 AATATAT
1 AATATAT
57703063 GATACTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 24 0.25
61 37 0.38
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:57702988 original size:120 final size:120
Alignment explanation
Indices: 57702843--57703072 Score: 460
Period size: 120 Copynumber: 1.9 Consensus size: 120
57702833 ATCATATTTA
57702843 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
57702908 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
57702963 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
57703028 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAA
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAA
57703073 TTTACTCAAA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:57703008 original size:14 final size:15
Alignment explanation
Indices: 57702959--57703010 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
57702949 ATAAAATATA
57702959 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
57702974 TATTAAATATATTAT
1 AATTAAATATATTAT
57702989 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
57703002 AATTTAATA
1 AATTAAATA
57703011 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:57703061 original size:59 final size:59
Alignment explanation
Indices: 57702878--57703061 Score: 175
Period size: 59 Copynumber: 3.1 Consensus size: 59
57702868 TAATTAAAAT
57702878 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * *
57702937 ATAT-ATGATACTATAAAA-TATAAATTAA-CATAATTATTATTAAAT-ATATTATAATTAAA--
1 ATATAAT-TTA--ATAAAATTCTTAA-TAATC--AA-TATTCTTATATGA-ATT-TACTCAAATC
57702996 AT-
57 ATA
57702998 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
57703057 ATATA
1 ATATA
57703062 TGATACTATA
Statistics
Matches: 95, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
56 6 0.06
57 12 0.13
58 7 0.07
59 20 0.21
60 10 0.11
61 15 0.16
62 7 0.07
63 12 0.13
64 6 0.06
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.42
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
Found at i:57709460 original size:15 final size:15
Alignment explanation
Indices: 57709440--57709471 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
57709430 CATTTCACTA
*
57709440 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
57709455 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
57709470 TT
1 TT
57709472 TGCATGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:57716028 original size:24 final size:24
Alignment explanation
Indices: 57716001--57716052 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
57715991 TTAGTAAGTC
*
57716001 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
57716025 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
57716049 AAAT
1 AAAT
57716053 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:57721537 original size:36 final size:36
Alignment explanation
Indices: 57721490--57721562 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
57721480 CACATGCTAA
* *
57721490 TTATGATCAATGGCCCATTTATCCTCTAAGTTTTTT
1 TTATGATCAATGGCCCACTGATCCTCTAAGTTTTTT
*
57721526 TTATGATCAATGGCCTACTGATCCTCTAAGTTTTTT
1 TTATGATCAATGGCCCACTGATCCTCTAAGTTTTTT
57721562 T
1 T
57721563 GTATTTAACG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (36 bp):
TTATGATCAATGGCCCACTGATCCTCTAAGTTTTTT
Found at i:57724737 original size:23 final size:21
Alignment explanation
Indices: 57724681--57724757 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
57724671 TACGACACAT
* * *
57724681 AAGTACCTGAAACGACACACG
1 AAGTGCCTGATACAACACACG
57724702 AAGTGCCTGATACAACACACG
1 AAGTGCCTGATACAACACACG
* * * **
57724723 AGGTGCTTGACATACGACACATA
1 AAGTGCCTG--ATACAACACACG
57724746 AAGTGCCTGATA
1 AAGTGCCTGATA
57724758 TACGACACAT
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
21 28 0.64
23 16 0.36
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.17
Consensus pattern (21 bp):
AAGTGCCTGATACAACACACG
Found at i:57724760 original size:23 final size:22
Alignment explanation
Indices: 57724670--57724776 Score: 94
Period size: 23 Copynumber: 4.9 Consensus size: 22
57724660 CCTGATCAGT
*
57724670 ATACGACACAT-AAGTACCTGA
1 ATACGACACATAAAGTGCCTGA
**
57724691 A-ACGACACACGAAGTGCCTG-
1 ATACGACACATAAAGTGCCTGA
* ** * *
57724711 ATACAACACACGAGGTGCTTGA
1 ATACGACACATAAAGTGCCTGA
57724733 CATACGACACATAAAGTGCCTGA
1 -ATACGACACATAAAGTGCCTGA
*
57724756 TATACGACACATATAGTGCCT
1 -ATACGACACATAAAGTGCCT
57724777 AATCGGCAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
20 9 0.13
21 25 0.36
23 36 0.51
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTGA
Found at i:57727531 original size:36 final size:36
Alignment explanation
Indices: 57727450--57727520 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
57727440 TTATATAAAT
* * *
57727450 ACATATACTTTCATAAACTTCCATTCACTTGAATTA
1 ACATATACATCCATAAACTTCCATTCAATTGAATTA
**
57727486 ACATATACATCCATAAACTTTTATTCAATTGAATT
1 ACATATACATCCATAAACTTCCATTCAATTGAATT
57727521 GACAATTACA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.39
Consensus pattern (36 bp):
ACATATACATCCATAAACTTCCATTCAATTGAATTA
Found at i:57734775 original size:35 final size:36
Alignment explanation
Indices: 57734725--57734794 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
57734715 CATTATAATC
* *
57734725 ACTGTCACATTGCATGAA-AACATACCTACATATTT
1 ACTGTCACATGGCATGAATAACATACCCACATATTT
*
57734760 ACTGTCTCATGGCATGAATAACATACCCACATATT
1 ACTGTCACATGGCATGAATAACATACCCACATATT
57734795 CTCATTCACA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 16 0.52
36 15 0.48
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (36 bp):
ACTGTCACATGGCATGAATAACATACCCACATATTT
Found at i:57738481 original size:41 final size:42
Alignment explanation
Indices: 57738365--57738481 Score: 143
Period size: 41 Copynumber: 2.8 Consensus size: 42
57738355 TTGTATAAAA
* * *
57738365 CACCGGCATAAAGCCTGTTAGGCACAAAGCCTG-ATACATTT
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAATACATTT
*
57738406 CACCGGCA-CAAAGCCTGCTAGGCATAAAGTCTGAATTA-A-TT
1 CACCGGCATC-AAGCCTGCTAGGCATAAAGCCTGAA-TACATTT
*
57738447 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAA
1 CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAA
57738482 AATCTCAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
41 61 0.92
42 3 0.05
43 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.21
Consensus pattern (42 bp):
CACCGGCATCAAGCCTGCTAGGCATAAAGCCTGAATACATTT
Found at i:57738688 original size:64 final size:64
Alignment explanation
Indices: 57738567--57738688 Score: 181
Period size: 64 Copynumber: 1.9 Consensus size: 64
57738557 TCGAACCATA
* * *
57738567 CACATATGTATGTAAAATTCATAAATTAAATTCAGCTCAAGAACTTTATAACCTATATTTGAAT
1 CACATATGTATATAAAATTCATAAATTAAATTCAGCTCAAGAACTTTAAAACATATATTTGAAT
* * * *
57738631 CACATATGTATATAAAATTCGTACATTAATTTCAGCTCAAGAACTTTAAAATATATAT
1 CACATATGTATATAAAATTCATAAATTAAATTCAGCTCAAGAACTTTAAAACATATAT
57738689 ATATTCGAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (64 bp):
CACATATGTATATAAAATTCATAAATTAAATTCAGCTCAAGAACTTTAAAACATATATTTGAAT
Found at i:57738832 original size:60 final size:60
Alignment explanation
Indices: 57738711--57738837 Score: 150
Period size: 60 Copynumber: 2.1 Consensus size: 60
57738701 TATGTGTGTA
* * * **
57738711 TATATATATATATTTCATAATATTAAGTTCAACTCAAAGAACTTGTATCATACATTCAAC
1 TATATATATATAATTCATAATATTAAATTCAACTCAAAGAAATTAAATCATACATTCAAC
* *
57738771 TATATATATATAATTCATAACT-TTAAATTCAACTC-ATGAAATTAAATCTTACATTCGAAC
1 TATATATATATAATTCATAA-TATTAAATTCAACTCAAAGAAATTAAATCATACATTC-AAC
*
57738831 TACATAT
1 TATATAT
57738838 CCATGTAAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
59 16 0.28
60 40 0.70
61 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.39
Consensus pattern (60 bp):
TATATATATATAATTCATAATATTAAATTCAACTCAAAGAAATTAAATCATACATTCAAC
Found at i:57741321 original size:78 final size:78
Alignment explanation
Indices: 57741089--57741314 Score: 389
Period size: 78 Copynumber: 2.9 Consensus size: 78
57741079 TCTGACTTTT
*
57741089 ACCTTGAACTTTTCTAGTAAATTTTTACGCAAATTCAACCAATTTGATGCTCTTTATGAATGCAA
1 ACCTTGGACTTTTCTAGTAAATTTTTACGCAAATTCAACCAATTTGATGCTCTTTATGAATGCAA
57741154 TGCTTACAGGATC
66 TGCTTACAGGATC
* *
57741167 ACCTTGGACTTTTCTAGTAAATTTTCACACAAATTCAACCAATTTGATGCTCTTTATGAATGCAA
1 ACCTTGGACTTTTCTAGTAAATTTTTACGCAAATTCAACCAATTTGATGCTCTTTATGAATGCAA
*
57741232 TTCTTACAGGATC
66 TGCTTACAGGATC
* * *
57741245 ACCTTGGACTTTTCTAGTAAATTTTTACGCATATTCATCCAAATTGATGCTCTTTATGAATGCAA
1 ACCTTGGACTTTTCTAGTAAATTTTTACGCAAATTCAACCAATTTGATGCTCTTTATGAATGCAA
57741310 TGCTT
66 TGCTT
57741315 GTAGGATGAA
Statistics
Matches: 138, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 138 1.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.38
Consensus pattern (78 bp):
ACCTTGGACTTTTCTAGTAAATTTTTACGCAAATTCAACCAATTTGATGCTCTTTATGAATGCAA
TGCTTACAGGATC
Found at i:57749537 original size:3 final size:3
Alignment explanation
Indices: 57749529--57749580 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
57749519 CTCAAGCTGT
*
57749529 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
57749577 TTA T
1 TTA T
57749581 ATTTTGGTCC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:57762161 original size:36 final size:36
Alignment explanation
Indices: 57762121--57762193 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 36
57762111 CTAGAAGATA
57762121 TAATTATGGAA-TCTTAGAGTTCTAATTGTATATAGC
1 TAATTATGGAAGT-TTAGAGTTCTAATTGTATATAGC
*
57762157 TAATTATGTAAGTTTAGAGTTCTAATTGTATATAGC
1 TAATTATGGAAGTTTAGAGTTCTAATTGTATATAGC
57762193 T
1 T
57762194 TTTAATTGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 34 0.97
37 1 0.03
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (36 bp):
TAATTATGGAAGTTTAGAGTTCTAATTGTATATAGC
Found at i:57762495 original size:49 final size:47
Alignment explanation
Indices: 57762419--57762515 Score: 133
Period size: 49 Copynumber: 2.0 Consensus size: 47
57762409 TAAGGGAATT
*
57762419 CTGTTGAATCCTTTATCGTTACGAGTTAAAGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCCTTTATCCTTAC-AGTT-AAGCTGACTTAGGCGTTTTTA
*
57762468 CTGTTGAATCCTTTATCACTCTA-AGTTAGGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCCTTTATC-CT-TACAGTTAAGCTGACTTAGGCGTTTTTA
57762516 AGCAAAGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
48 20 0.45
49 21 0.48
50 1 0.02
51 2 0.05
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.41
Consensus pattern (47 bp):
CTGTTGAATCCTTTATCCTTACAGTTAAGCTGACTTAGGCGTTTTTA
Found at i:57767300 original size:36 final size:36
Alignment explanation
Indices: 57767260--57767332 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
57767250 CTAGAAGATA
* * *
57767260 TAATTATGGAATCTTAGAGTTCTAATTGTATATAGC
1 TAATTATGGAAGCTTAGAATTCTAATTGTATACAGC
*
57767296 TAATTATGTAAGCTTAGAATTCTAATTGTATACAGC
1 TAATTATGGAAGCTTAGAATTCTAATTGTATACAGC
57767332 T
1 T
57767333 TTTAATTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (36 bp):
TAATTATGGAAGCTTAGAATTCTAATTGTATACAGC
Found at i:57767634 original size:49 final size:48
Alignment explanation
Indices: 57767558--57767654 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 48
57767548 TAAGGGAATT
** *
57767558 CTGTTAAATCCTTTATCGTTGCGAGTTAAAACTGACTTAGGCGTTTTTA
1 CTGTTAAATCCTTTATCACTGCAAGTT-AAACTGACTTAGGCGTTTTTA
* **
57767607 CTGTTGAATCCTTTATCACTGCAAGTTAGGCTGACTTAGGCGTTTTTA
1 CTGTTAAATCCTTTATCACTGCAAGTTAAACTGACTTAGGCGTTTTTA
57767655 AGCAAAGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 19 0.45
49 23 0.55
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.40
Consensus pattern (48 bp):
CTGTTAAATCCTTTATCACTGCAAGTTAAACTGACTTAGGCGTTTTTA
Found at i:57768821 original size:62 final size:63
Alignment explanation
Indices: 57768745--57768870 Score: 236
Period size: 63 Copynumber: 2.0 Consensus size: 63
57768735 GCGGTGATAA
*
57768745 AGAAACAGGTGAAGTTGCAATTT-GGGGGATATAGATATTGCTCCACTTCCAAACTTTAACTT
1 AGAAACAGGTGAAGTTGCAATTTGGGGGGATATAGATATTGCTCCACTTCCAAACGTTAACTT
57768807 AGAAACAGGTGAAGTTGCAATTTGGGGGGATATAGATATTGCTCCACTTCCAAACGTTAACTT
1 AGAAACAGGTGAAGTTGCAATTTGGGGGGATATAGATATTGCTCCACTTCCAAACGTTAACTT
57768870 A
1 A
57768871 CTTGATTCTT
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
62 23 0.37
63 39 0.63
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (63 bp):
AGAAACAGGTGAAGTTGCAATTTGGGGGGATATAGATATTGCTCCACTTCCAAACGTTAACTT
Found at i:57785168 original size:27 final size:27
Alignment explanation
Indices: 57785137--57785189 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
57785127 ATTTAATTAA
*
57785137 AATTTTAAAG-TTTTATACTTTTTAAAT
1 AATTTTAAAGATTTT-TAATTTTTAAAT
*
57785164 AATTTTAATGATTTTTAATTTTTAAA
1 AATTTTAAAGATTTTTAATTTTTAAA
57785190 AATAACTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (27 bp):
AATTTTAAAGATTTTTAATTTTTAAAT
Found at i:57803229 original size:16 final size:16
Alignment explanation
Indices: 57803208--57803241 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
57803198 TATATTGTCA
57803208 ATATAAAAAATATATT
1 ATATAAAAAATATATT
*
57803224 ATATAAAATATATATT
1 ATATAAAAAATATATT
57803240 AT
1 AT
57803242 TTATTTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATATAAAAAATATATT
Found at i:57805426 original size:41 final size:41
Alignment explanation
Indices: 57805381--57805482 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
57805371 GCTTAGAGCT
*
57805381 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACAAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
* * * *
57805422 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
57805463 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
57805483 TACTGAATCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 3 0.05
41 52 0.95
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
Found at i:57819398 original size:139 final size:139
Alignment explanation
Indices: 57819148--57819428 Score: 553
Period size: 139 Copynumber: 2.0 Consensus size: 139
57819138 GTATATCTAT
57819148 TATGTTTGTTGTTGAGCTAAAATTAAAAGAAATTTAATTGAATAAATTCAAATTATAAATGGTAT
1 TATGTTTGTTGTTGAGCTAAAATTAAAAGAAATTTAATTGAATAAATTCAAATTATAAATGGTAT
*
57819213 AAATATGTATATACAATGTTCGAATATATATATGCTTATATAAATATTTTTGAATTAAGTTAAAG
66 AAATATATATATACAATGTTCGAATATATATATGCTTATATAAATATTTTTGAATTAAGTTAAAG
57819278 TATGAATGG
131 TATGAATGG
57819287 TATGTTTGTTGTTGAGCTAAAATTAAAAGAAATTTAATTGAATAAATTCAAATTATAAATGGTAT
1 TATGTTTGTTGTTGAGCTAAAATTAAAAGAAATTTAATTGAATAAATTCAAATTATAAATGGTAT
57819352 AAATATATATATACAATGTTCGAATATATATATGCTTATATAAATATTTTTGAATTAAGTTAAAG
66 AAATATATATATACAATGTTCGAATATATATATGCTTATATAAATATTTTTGAATTAAGTTAAAG
57819417 TATGAATGG
131 TATGAATGG
57819426 TAT
1 TAT
57819429 AAGGTATATT
Statistics
Matches: 141, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 141 1.00
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.41
Consensus pattern (139 bp):
TATGTTTGTTGTTGAGCTAAAATTAAAAGAAATTTAATTGAATAAATTCAAATTATAAATGGTAT
AAATATATATATACAATGTTCGAATATATATATGCTTATATAAATATTTTTGAATTAAGTTAAAG
TATGAATGG
Found at i:57819999 original size:41 final size:41
Alignment explanation
Indices: 57819954--57820055 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
57819944 GCTTAGAGCT
*
57819954 TAGCAGGCTTATTGCCGGTGAAACACTTCAGACAAAATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
* * * *
57819995 TAGCAGGCTTAATGCCGGTGAAATATTTCAGACTATATGTC
1 TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
57820036 TAGCAGGC-TAAGTGCCGGTG
1 TAGCAGGCTTAA-TGCCGGTG
57820056 TACTGAATCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 3 0.05
41 52 0.95
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (41 bp):
TAGCAGGCTTAATGCCGGTGAAACACTTCAGACAAAATGTC
Found at i:57822937 original size:24 final size:24
Alignment explanation
Indices: 57822903--57823010 Score: 87
Period size: 24 Copynumber: 4.5 Consensus size: 24
57822893 TACGAGCTGT
57822903 ATAAT-AGGAAGCTCATAAGAGCC
1 ATAATCAGGAAGCTCATAAGAGCC
** *
57822926 ATAATCAGGAAGCTCATGCGAGCA
1 ATAATCAGGAAGCTCATAAGAGCC
* * **
57822950 ATAAT-GGGTAGCTCCGAAGAGCC
1 ATAATCAGGAAGCTCATAAGAGCC
*
57822973 ATTAATCAGGAAGCTC-TAGATAGCC
1 A-TAATCAGGAAGCTCATA-AGAGCC
*
57822998 ATATATCGGGAAG
1 ATA-ATCAGGAAG
57823011 TTCAAGCGAG
Statistics
Matches: 65, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
23 17 0.26
24 27 0.42
25 21 0.32
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (24 bp):
ATAATCAGGAAGCTCATAAGAGCC
Found at i:57823060 original size:74 final size:72
Alignment explanation
Indices: 57822904--57823062 Score: 173
Period size: 74 Copynumber: 2.2 Consensus size: 72
57822894 ACGAGCTGTA
* * *
57822904 TAAT-AGGAAGCTCATA-AGAGCCATAATCAGGAAGCTCATGCGAGCAATAATGGGTAGCTCCGA
1 TAATCAGGAAGCTC-TAGATAGCCATAATCAGGAAGCTCAAGCGAGCAATAATGGGAAGCTCCGA
57822967 AGAGCCAT
65 AGAGCCAT
* *
57822975 TAATCAGGAAGCTCTAGATAGCCATATATCGGGAAGTTCAAGCGAGCCAAT-ATGGAGAAGCTTC
1 TAATCAGGAAGCTCTAGATAGCCATA-ATCAGGAAGCTCAAGCGAG-CAATAATGG-GAAGC-TC
*
57823039 GGAA-AGCCAT
62 CGAAGAGCCAT
* *
57823049 TAATTATGAAGCTC
1 TAATCAGGAAGCTC
57823063 ACAAAGAGCC
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
71 6 0.08
72 17 0.23
73 20 0.27
74 26 0.35
75 5 0.07
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (72 bp):
TAATCAGGAAGCTCTAGATAGCCATAATCAGGAAGCTCAAGCGAGCAATAATGGGAAGCTCCGAA
GAGCCAT
Found at i:57823077 original size:26 final size:26
Alignment explanation
Indices: 57823043--57823100 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
57823033 AGCTTCGGAA
* *
57823043 AGCCATTAATTATGAAGCTCACAAAG
1 AGCCATTAATCAGGAAGCTCACAAAG
* *
57823069 AGCCTTTAATCGGGAAGCTCACAAAG
1 AGCCATTAATCAGGAAGCTCACAAAG
57823095 AGCCAT
1 AGCCAT
57823101 ATATCGGGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (26 bp):
AGCCATTAATCAGGAAGCTCACAAAG
Found at i:57823106 original size:26 final size:26
Alignment explanation
Indices: 57823056--57823115 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
57823046 CATTAATTAT
*
57823056 GAAGCTCACAAAGAGCCTTTAATCGG
1 GAAGCTCACAAAGAGCCTATAATCGG
57823082 GAAGCTCACAAAGAGCC-ATATATCGG
1 GAAGCTCACAAAGAGCCTATA-ATCGG
*
57823108 GACGCTCA
1 GAAGCTCA
57823116 TAAGAGTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 2 0.06
26 29 0.94
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (26 bp):
GAAGCTCACAAAGAGCCTATAATCGG
Found at i:57831555 original size:15 final size:15
Alignment explanation
Indices: 57831529--57831570 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
57831519 TTTCATTTTT
*
57831529 TTTCACTTTATTATTA
1 TTTCATTTTATTA-TA
57831545 TTTC-TTTTATTATA
1 TTTCATTTTATTATA
57831559 TTTCATTTTATT
1 TTTCATTTTATT
57831571 TCTTCTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 14 0.58
16 4 0.17
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTCATTTTATTATA
Found at i:57839371 original size:29 final size:29
Alignment explanation
Indices: 57839305--57839383 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 29
57839295 TTTGCCTCAA
* *
57839305 TAGTT-TTTGAATTTTTAAAATTTAGTGC
1 TAGTTATTTTAATTTTTAAAAATTAGTGC
*
57839333 -ATTTACTTTTAATTTTTAAAAATTAGT-C
1 TAGTTA-TTTTAATTTTTAAAAATTAGTGC
*
57839361 TTAGTTATTTT-ATTTTAAAAAAT
1 -TAGTTATTTTAATTTTTAAAAAT
57839384 AAAATCCAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
27 3 0.07
28 12 0.29
29 23 0.55
30 4 0.10
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (29 bp):
TAGTTATTTTAATTTTTAAAAATTAGTGC
Found at i:57841976 original size:19 final size:18
Alignment explanation
Indices: 57841942--57842004 Score: 81
Period size: 20 Copynumber: 3.3 Consensus size: 18
57841932 TTTTAAAAAT
*
57841942 AATTTTAACTTTGATTGAA
1 AATTTTAAC-TTGATTAAA
57841961 AATGTTTAACTTGATTTAAAA
1 AAT-TTTAACTTGA-TT-AAA
57841982 AATTTTAACTTGATTAAA
1 AATTTTAACTTGATTAAA
57842000 AATTT
1 AATTT
57842005 ATTCAAAAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
18 8 0.20
19 9 0.22
20 18 0.45
21 5 0.12
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (18 bp):
AATTTTAACTTGATTAAA
Found at i:57844586 original size:41 final size:41
Alignment explanation
Indices: 57844529--57844678 Score: 230
Period size: 41 Copynumber: 3.7 Consensus size: 41
57844519 TTTAACATAT
* *
57844529 TCACCGGCACTTAGCCTACTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* *
57844570 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
57844611 TCACCGGCACTTAGCCTGCTAGG-TTCATAACCTGGTTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTT-ATAACCTGATTCAGA
*
57844652 TCACCGGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
57844679 AAGTCTAAAT
Statistics
Matches: 100, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
40 2 0.02
41 96 0.96
42 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:57844697 original size:82 final size:83
Alignment explanation
Indices: 57844527--57844703 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 83
57844517 AATTTAACAT
*
57844527 ATTCACCGGCACTTAGCCTACTAGGCTTATAGCCTGATTCAGATCACCGGCACGTAGCCTGCTAG
1 ATTCACCGGCACTTAGCCTACTAGGCTTATAACCTGATTCAGATCACCGGCACGTAGCCTGCTAG
** *
57844592 GTTTATAACCTGATTCAG
66 ACTTATAACCTAATTCAG
* * *
57844610 A-TCACCGGCACTTAGCCTGCTAGG-TTCATAACCTGGTTCAGATCACCGGCACTTAGCCTGCTA
1 ATTCACCGGCACTTAGCCTACTAGGCTT-ATAACCTGATTCAGATCACCGGCACGTAGCCTGCTA
*
57844673 GACTTA-AAGTCTAAATT-A-
65 GACTTATAA-CCT-AATTCAG
57844691 ATTCACCGGCACT
1 ATTCACCGGCACT
57844704 ACATCTGCTA
Statistics
Matches: 82, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
81 5 0.06
82 73 0.89
83 4 0.05
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (83 bp):
ATTCACCGGCACTTAGCCTACTAGGCTTATAACCTGATTCAGATCACCGGCACGTAGCCTGCTAG
ACTTATAACCTAATTCAG
Found at i:57845131 original size:16 final size:15
Alignment explanation
Indices: 57845103--57845135 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
57845093 AACTTACAAA
57845103 ATTCGGCATATATAT
1 ATTCGGCATATATAT
57845118 ATTCGGCTATATATAT
1 ATTCGGC-ATATATAT
57845134 AT
1 AT
57845136 ATATATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (15 bp):
ATTCGGCATATATAT
Found at i:57849256 original size:28 final size:28
Alignment explanation
Indices: 57849220--57849273 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
57849210 ACAAAGTTCA
* *
57849220 AATAACGATAAGCATCAAAGTGCAAAAT
1 AATAACGATAAGCACCAAAGTACAAAAT
57849248 AATAACGATAAGCACCAAAGTACAAA
1 AATAACGATAAGCACCAAAGTACAAA
57849274 TTTTTACAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.56, C:0.17, G:0.13, T:0.15
Consensus pattern (28 bp):
AATAACGATAAGCACCAAAGTACAAAAT
Found at i:57853273 original size:13 final size:13
Alignment explanation
Indices: 57853255--57853280 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57853245 CGGTGCTTTG
57853255 GAGAATTTTCATT
1 GAGAATTTTCATT
57853268 GAGAATTTTCATT
1 GAGAATTTTCATT
57853281 TTCGAGAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GAGAATTTTCATT
Found at i:57856870 original size:21 final size:22
Alignment explanation
Indices: 57856828--57856875 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
57856818 TATTAAATAT
*
57856828 AATTTAATAATAATCTTATTAA
1 AATTTAATAATAATCTGATTAA
* *
57856850 AATTTAATAA-CATCTGCTTAA
1 AATTTAATAATAATCTGATTAA
57856871 AATTT
1 AATTT
57856876 TCTTTTGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (22 bp):
AATTTAATAATAATCTGATTAA
Found at i:57870734 original size:116 final size:116
Alignment explanation
Indices: 57870597--57870835 Score: 460
Period size: 116 Copynumber: 2.1 Consensus size: 116
57870587 TACACTCAAT
57870597 TTCAATATCCTCCACTATTTATTCTACTCTTTTCATATTATTGCCCTTCTAGTCCTTCCTCTATT
1 TTCAATATCCTCCACTATTTATTCTACTCTTTTCATATTATTGCCCTTCTAGTCCTTCCTCTATT
*
57870662 TCTCATTTATCTAATCAAGTCATTTCTTCTTTTTAATTTTCACACTTTTAC
66 TCTCATTTATCTAATCAAGTCATTTATTCTTTTTAATTTTCACACTTTTAC
*
57870713 TTCAATATCCTCCACTATTTATTCTACTCTTTTCATATTATTTCCCTTCTAGTCCTTCCTCTATT
1 TTCAATATCCTCCACTATTTATTCTACTCTTTTCATATTATTGCCCTTCTAGTCCTTCCTCTATT
57870778 TCTCATTTATCTAATCAAGTCATTTATTCTTTTTAATTTTCACACTTTTAC
66 TCTCATTTATCTAATCAAGTCATTTATTCTTTTTAATTTTCACACTTTTAC
57870829 TTCAATA
1 TTCAATA
57870836 CTTTTCACTC
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 121 1.00
ACGTcount: A:0.22, C:0.25, G:0.02, T:0.51
Consensus pattern (116 bp):
TTCAATATCCTCCACTATTTATTCTACTCTTTTCATATTATTGCCCTTCTAGTCCTTCCTCTATT
TCTCATTTATCTAATCAAGTCATTTATTCTTTTTAATTTTCACACTTTTAC
Found at i:57871003 original size:20 final size:20
Alignment explanation
Indices: 57870978--57871018 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
57870968 AACATGTGTT
57870978 CAACCCAAAATGACACGGTC
1 CAACCCAAAATGACACGGTC
*
57870998 CAACCCGAAATGACACGGTC
1 CAACCCAAAATGACACGGTC
57871018 C
1 C
57871019 CATTTTAGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.37, G:0.17, T:0.10
Consensus pattern (20 bp):
CAACCCAAAATGACACGGTC
Found at i:57882638 original size:16 final size:17
Alignment explanation
Indices: 57882617--57882648 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57882607 TAAAATTTAA
57882617 ATATTTT-ATTAAAATG
1 ATATTTTGATTAAAATG
57882633 ATATTTTGATTAAAAT
1 ATATTTTGATTAAAAT
57882649 TTATTATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
ATATTTTGATTAAAATG
Found at i:57882786 original size:22 final size:24
Alignment explanation
Indices: 57882759--57882804 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
57882749 TTTTATAGTT
57882759 GTTGTTATAGA-TG-AAAAATAAA
1 GTTGTTATAGAGTGTAAAAATAAA
*
57882781 GTTGTTATGGAGTGTAAAAATAAA
1 GTTGTTATAGAGTGTAAAAATAAA
57882805 ACATGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
23 2 0.10
24 9 0.43
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.33
Consensus pattern (24 bp):
GTTGTTATAGAGTGTAAAAATAAA
Found at i:57883306 original size:21 final size:21
Alignment explanation
Indices: 57883282--57883325 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
57883272 AAGATGTGAC
*
57883282 TTGTATTGAATTGAATG-TAAA
1 TTGTATTAAATTG-ATGTTAAA
57883303 TTGTATTAAATTGATGTTAAA
1 TTGTATTAAATTGATGTTAAA
57883324 TT
1 TT
57883326 TACTCGTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (21 bp):
TTGTATTAAATTGATGTTAAA
Found at i:57883710 original size:24 final size:25
Alignment explanation
Indices: 57883663--57883710 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
57883653 CCTCTCAAGC
* *
57883663 TTCTCGTTATAGTGTTCTTAGGAGT
1 TTCTCGTTATAATGCTCTTAGGAGT
*
57883688 TTCTCGTTA-AATGCTCTTCGGAG
1 TTCTCGTTATAATGCTCTTAGGAG
57883711 CATCCCGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.17, C:0.17, G:0.23, T:0.44
Consensus pattern (25 bp):
TTCTCGTTATAATGCTCTTAGGAGT
Found at i:57883908 original size:24 final size:24
Alignment explanation
Indices: 57883874--57883924 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
57883864 GTGCTTCCCA
*
57883874 TTAATTGCTCTTCAGAGCTACCCG
1 TTAATTACTCTTCAGAGCTACCCG
**
57883898 TTAATTACTCTTTGGAGCTACCCG
1 TTAATTACTCTTCAGAGCTACCCG
57883922 TTA
1 TTA
57883925 TAGGCTCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (24 bp):
TTAATTACTCTTCAGAGCTACCCG
Found at i:57883946 original size:25 final size:24
Alignment explanation
Indices: 57883888--57883951 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 24
57883878 TTGCTCTTCA
57883888 GAGCTACCCGTTAATTA--CTCTTTG
1 GAGCTACCCGTT-A-TAGGCTCTTTG
57883912 GAGCTACCCGTTATAGGCTCTTTG
1 GAGCTACCCGTTATAGGCTCTTTG
*
57883936 TGAGCTTCCCGTTATA
1 -GAGCTACCCGTTATA
57883952 TTGCCCAGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
22 2 0.06
23 1 0.03
24 19 0.53
25 14 0.39
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (24 bp):
GAGCTACCCGTTATAGGCTCTTTG
Found at i:57884980 original size:24 final size:24
Alignment explanation
Indices: 57884953--57884999 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
57884943 ATTGAAATGG
57884953 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
57884977 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
57885000 GGAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:57885021 original size:21 final size:21
Alignment explanation
Indices: 57884970--57885021 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
57884960 TAGTATGTGA
* *
57884970 TGAATTTATT-GAATTTATAT
1 TGAATATATTGGAATATATAT
*
57884990 TGATTGA-ATTGGAATATATAT
1 TGAAT-ATATTGGAATATATAT
57885011 TGAATATATTG
1 TGAATATATTG
57885022 ATTATTTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (21 bp):
TGAATATATTGGAATATATAT
Found at i:57885217 original size:39 final size:38
Alignment explanation
Indices: 57885155--57885230 Score: 107
Period size: 39 Copynumber: 2.0 Consensus size: 38
57885145 CGACTTCAAG
* *
57885155 TCGATGAGACACTAGGTGTCAATTTAACTTCGGATTAAT
1 TCGATGAGACACTAGATGCCAATTT-ACTTCGGATTAAT
* *
57885194 TCGATGAGGCACTAGATGCCAATTTACTTCGGTTTAA
1 TCGATGAGACACTAGATGCCAATTTACTTCGGATTAA
57885231 CCAATGTGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
38 11 0.33
39 22 0.67
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (38 bp):
TCGATGAGACACTAGATGCCAATTTACTTCGGATTAAT
Found at i:57885457 original size:20 final size:20
Alignment explanation
Indices: 57885432--57885471 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
57885422 TTGAATATGG
57885432 TATGGATAAAGCAATTGCAT
1 TATGGATAAAGCAATTGCAT
57885452 TATGGATAAAGCAATTGCAT
1 TATGGATAAAGCAATTGCAT
57885472 AAATGAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (20 bp):
TATGGATAAAGCAATTGCAT
Found at i:57890970 original size:37 final size:40
Alignment explanation
Indices: 57890909--57891003 Score: 117
Period size: 37 Copynumber: 2.4 Consensus size: 40
57890899 ATCATAAGTG
*
57890909 TATAT-ATATTATAAATATTTAAAGTTAAAA-AA-TATATA
1 TATATAATATTAT-AATATTAAAAGTTAAAATAAGTATATA
57890947 T-TATAATATTATAATATTAAAAGTTAAAAGTTAAGTATATA
1 TATATAATATTATAATATTAAAAGTTAAAA--TAAGTATATA
*
57890988 TATATTATATTATAAT
1 TATATAATATTATAAT
57891004 GATAAAGTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
37 19 0.39
38 8 0.16
40 2 0.04
41 7 0.14
42 13 0.27
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (40 bp):
TATATAATATTATAATATTAAAAGTTAAAATAAGTATATA
Found at i:57891059 original size:25 final size:25
Alignment explanation
Indices: 57891005--57891079 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 25
57890995 TATTATAATG
* *
57891005 ATAAAGTAAAA-G-AAAAAGAAATAG
1 ATAAAG-AAAAGGAAAAAAGAAAGAA
* * *
57891029 AGAAAG-AAATGAAACAAAGAAGGAA
1 ATAAAGAAAAGGAAA-AAAGAAAGAA
57891054 ATAAAGAAAAGGAAAAAAGAAAGAA
1 ATAAAGAAAAGGAAAAAAGAAAGAA
57891079 A
1 A
57891080 GAAGGAGAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
22 3 0.08
23 1 0.03
24 7 0.17
25 22 0.55
26 7 0.17
ACGTcount: A:0.72, C:0.01, G:0.20, T:0.07
Consensus pattern (25 bp):
ATAAAGAAAAGGAAAAAAGAAAGAA
Found at i:57891781 original size:24 final size:24
Alignment explanation
Indices: 57891754--57891800 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
57891744 ATTGAAATAG
57891754 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
57891778 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
57891801 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:57892026 original size:38 final size:37
Alignment explanation
Indices: 57891982--57892059 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
57891972 TGTCAATTTA
*
57891982 TTACTTCGGATTAATTCAATAAGACACTGGGTGCCAAT
1 TTACTTCGGATTAA-CCAATAAGACACTGGGTGCCAAT
* * * *
57892020 TTACTTCGGTTTAACCGATGAGACACTGGGTGTCAAT
1 TTACTTCGGATTAACCAATAAGACACTGGGTGCCAAT
57892057 TTA
1 TTA
57892060 TTACTTTGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
37 22 0.63
38 13 0.37
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (37 bp):
TTACTTCGGATTAACCAATAAGACACTGGGTGCCAAT
Found at i:57892078 original size:40 final size:40
Alignment explanation
Indices: 57891957--57892091 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 40
57891947 GACTTCGAGT
* *
57891957 CGATGAGAAACTAGGTGTCAATTTATTACTTCGGATTAATT
1 CGATGAGACACTAGGTGTCAATTTATTACTTCGGATT-ATC
* * * * * *
57891998 CAATAAGACACTGGGTGCCAA--T-TTACTTCGGTTTAAC
1 CGATGAGACACTAGGTGTCAATTTATTACTTCGGATTATC
* * *
57892035 CGATGAGACACTGGGTGTCAATTTATTACTTTGAATTATC
1 CGATGAGACACTAGGTGTCAATTTATTACTTCGGATTATC
*
57892075 CGATGAGGCACTAGGTG
1 CGATGAGACACTAGGTG
57892092 CCAAACTGAT
Statistics
Matches: 74, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
37 19 0.26
38 11 0.15
39 2 0.03
40 26 0.35
41 16 0.22
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (40 bp):
CGATGAGACACTAGGTGTCAATTTATTACTTCGGATTATC
Found at i:57893016 original size:19 final size:21
Alignment explanation
Indices: 57892992--57893030 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
57892982 GGCTTACTGT
*
57892992 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
57893011 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
57893031 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:57893258 original size:3 final size:3
Alignment explanation
Indices: 57893237--57893304 Score: 97
Period size: 3 Copynumber: 23.0 Consensus size: 3
57893227 GTTTTTAGTC
57893237 TAT T-T TAT TAAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
57893281 TA- TAT TAT ATAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT
57893305 ACCTACATAT
Statistics
Matches: 60, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
2 6 0.10
3 48 0.80
4 6 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Done.