Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008460.1 Hibiscus syriacus cultivar Beakdansim tig00111273_pilon, whole genome shotgun sequence
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: 2854393
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 15
Found at i:1018919 original size:3 final size:3
Alignment explanation
Indices: 1018911--1018958 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
1018901 CACAAGTGAG
1018911 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1018959 TTGAAGATGC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1032925 original size:27 final size:27
Alignment explanation
Indices: 1032895--1032949 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
1032885 TTTTTATGTT
1032895 TGTAAAATTAAAAAGCGGGAGCATACG
1 TGTAAAATTAAAAAGCGGGAGCATACG
1032922 TGTAAAATTAAAAAGCGGGAGCATACG
1 TGTAAAATTAAAAAGCGGGAGCATACG
1032949 T
1 T
1032950 CGAAATAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.25, T:0.20
Consensus pattern (27 bp):
TGTAAAATTAAAAAGCGGGAGCATACG
Found at i:1036231 original size:35 final size:34
Alignment explanation
Indices: 1036146--1036232 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
1036136 ATTTGGTATT
*
1036146 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
1036180 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
1036218 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
1036233 ACTGAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:1038454 original size:111 final size:111
Alignment explanation
Indices: 1038246--1038467 Score: 390
Period size: 111 Copynumber: 2.0 Consensus size: 111
1038236 ATAACAAAAA
*
1038246 TTAATTCTTACTCTAATAATCATGAATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGAATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
1038311 AATTAAAACGTTAAAATATTACTGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGATAT
*
1038357 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGAATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
1038422 AATTAAAACGTTAAAATTTTACCGTATTAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGATAT
1038468 ATGATTTTCA
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 105 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.37
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGAATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATATTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:1038808 original size:50 final size:50
Alignment explanation
Indices: 1038754--1038884 Score: 154
Period size: 50 Copynumber: 2.6 Consensus size: 50
1038744 AGATACCCAG
* * **
1038754 GTATAGCACGGATCAGGGGGCGTGCTATACTCACGTGGCGCCGGATCACC
1 GTATAGCGCGGATCAGGGGGCGCGCTATACTCACGTGGCGCCAAATCACC
* ** * *
1038804 GTATATCGCGGGGCAGGGGGCGCACTATACTCACGTGGCGCCAAATCAGC
1 GTATAGCGCGGATCAGGGGGCGCGCTATACTCACGTGGCGCCAAATCACC
* * *
1038854 GTATAGCGCGGTTCAGGAGGCGCGCTTTACT
1 GTATAGCGCGGATCAGGGGGCGCGCTATACT
1038885 GATACGGGTA
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 66 1.00
ACGTcount: A:0.20, C:0.27, G:0.34, T:0.19
Consensus pattern (50 bp):
GTATAGCGCGGATCAGGGGGCGCGCTATACTCACGTGGCGCCAAATCACC
Found at i:1040075 original size:92 final size:92
Alignment explanation
Indices: 1039918--1040104 Score: 374
Period size: 92 Copynumber: 2.0 Consensus size: 92
1039908 AGAGGCGTTG
1039918 CGGCGCTGTTTCCGGCTTAACCACCGTTAAGAACCCAGTCTCCCTCGCCCGACTTGTCATGGAAA
1 CGGCGCTGTTTCCGGCTTAACCACCGTTAAGAACCCAGTCTCCCTCGCCCGACTTGTCATGGAAA
1039983 AATCACCACATTCGTATCTGGGCTTTT
66 AATCACCACATTCGTATCTGGGCTTTT
1040010 CGGCGCTGTTTCCGGCTTAACCACCGTTAAGAACCCAGTCTCCCTCGCCCGACTTGTCATGGAAA
1 CGGCGCTGTTTCCGGCTTAACCACCGTTAAGAACCCAGTCTCCCTCGCCCGACTTGTCATGGAAA
1040075 AATCACCACATTCGTATCTGGGCTTTT
66 AATCACCACATTCGTATCTGGGCTTTT
1040102 CGG
1 CGG
1040105 GTGCCGAAGA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 95 1.00
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.27
Consensus pattern (92 bp):
CGGCGCTGTTTCCGGCTTAACCACCGTTAAGAACCCAGTCTCCCTCGCCCGACTTGTCATGGAAA
AATCACCACATTCGTATCTGGGCTTTT
Found at i:1043789 original size:30 final size:30
Alignment explanation
Indices: 1043755--1043866 Score: 143
Period size: 30 Copynumber: 3.6 Consensus size: 30
1043745 CTACAGTTCG
*
1043755 AATGAAGGTCGTCGGGTGGTCTGGGCGACC
1 AATGAAGGTCGCCGGGTGGTCTGGGCGACC
1043785 AATGAAGGTCGCCGGGTGGTCTGGGCGACC
1 AATGAAGGTCGCCGGGTGGTCTGGGCGACC
* * *
1043815 AATGAATGAAGGTCGCCGGGTGTTCTAGGTGACC
1 ----AATGAAGGTCGCCGGGTGGTCTGGGCGACC
*
1043849 AATGAAGGTCGCCAGGTG
1 AATGAAGGTCGCCGGGTG
1043867 ATCCATGGGA
Statistics
Matches: 73, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
30 46 0.63
34 27 0.37
ACGTcount: A:0.21, C:0.20, G:0.40, T:0.20
Consensus pattern (30 bp):
AATGAAGGTCGCCGGGTGGTCTGGGCGACC
Found at i:1043828 original size:34 final size:34
Alignment explanation
Indices: 1043754--1043854 Score: 138
Period size: 34 Copynumber: 3.1 Consensus size: 34
1043744 GCTACAGTTC
*
1043754 GAATGAAGGTCGTCGGGTGGTCTGGGCGACC---
1 GAATGAAGGTCGCCGGGTGGTCTGGGCGACCAAT
1043785 -AATGAAGGTCGCCGGGTGGTCTGGGCGACCAAT
1 GAATGAAGGTCGCCGGGTGGTCTGGGCGACCAAT
* * *
1043818 GAATGAAGGTCGCCGGGTGTTCTAGGTGACCAAT
1 GAATGAAGGTCGCCGGGTGGTCTGGGCGACCAAT
1043852 GAA
1 GAA
1043855 GGTCGCCAGG
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
30 29 0.47
34 33 0.53
ACGTcount: A:0.22, C:0.19, G:0.40, T:0.20
Consensus pattern (34 bp):
GAATGAAGGTCGCCGGGTGGTCTGGGCGACCAAT
Found at i:1044648 original size:30 final size:30
Alignment explanation
Indices: 1044612--1044681 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
1044602 ATCACCTGGA
1044612 GACCTTCATTGGTCGCCCAGAACACCCGGC
1 GACCTTCATTGGTCGCCCAGAACACCCGGC
*
1044642 GACCTTCATTGGTCGCCCAGACCACCCGGC
1 GACCTTCATTGGTCGCCCAGAACACCCGGC
1044672 GACCTTCATT
1 GACCTTCATT
1044682 CGAACTGTAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.19, C:0.40, G:0.21, T:0.20
Consensus pattern (30 bp):
GACCTTCATTGGTCGCCCAGAACACCCGGC
Found at i:1048401 original size:75 final size:75
Alignment explanation
Indices: 1048278--1048427 Score: 300
Period size: 75 Copynumber: 2.0 Consensus size: 75
1048268 TTCAGCCAAG
1048278 CTATTTTGTGACAGCAAGACACCAATGTAAATAGCCGCCAATTCTGTCTTCCATAAGAGGATCAA
1 CTATTTTGTGACAGCAAGACACCAATGTAAATAGCCGCCAATTCTGTCTTCCATAAGAGGATCAA
1048343 ACATATCAAA
66 ACATATCAAA
1048353 CTATTTTGTGACAGCAAGACACCAATGTAAATAGCCGCCAATTCTGTCTTCCATAAGAGGATCAA
1 CTATTTTGTGACAGCAAGACACCAATGTAAATAGCCGCCAATTCTGTCTTCCATAAGAGGATCAA
1048418 ACATATCAAA
66 ACATATCAAA
1048428 ATCGACTGTC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (75 bp):
CTATTTTGTGACAGCAAGACACCAATGTAAATAGCCGCCAATTCTGTCTTCCATAAGAGGATCAA
ACATATCAAA
Found at i:1055745 original size:20 final size:20
Alignment explanation
Indices: 1055720--1055757 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1055710 AATCCCATCA
*
1055720 TTAAATTCATAAATCTAAAC
1 TTAAATCCATAAATCTAAAC
*
1055740 TTAAATCCCTAAATCTAA
1 TTAAATCCATAAATCTAA
1055758 TGCCCAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (20 bp):
TTAAATCCATAAATCTAAAC
Found at i:1055886 original size:15 final size:17
Alignment explanation
Indices: 1055853--1055890 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
1055843 AGAGGGGGAT
1055853 TTTCTCTTAAAAAATTA
1 TTTCTCTTAAAAAATTA
1055870 TTTCT-TTAAACAATATTA
1 TTTCTCTTAAA-AA-ATTA
1055888 TTT
1 TTT
1055891 TTTATTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.26
17 7 0.37
18 7 0.37
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTCTCTTAAAAAATTA
Found at i:1056055 original size:29 final size:29
Alignment explanation
Indices: 1055994--1056061 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
1055984 TTGTAAAAAT
*
1055994 TAGACACCTATTGTTAAATAAAAATTCTT
1 TAGACACCTATTGTTAAATAAAAATTCTA
*
1056023 TAGACACCTATTTTTAACGA-AAAAATT-TA
1 TAGACACCTATTGTTAA--ATAAAAATTCTA
*
1056052 TAGACCCCTA
1 TAGACACCTA
1056062 AAATTAACTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 26 0.76
30 7 0.21
31 1 0.03
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (29 bp):
TAGACACCTATTGTTAAATAAAAATTCTA
Found at i:1061243 original size:32 final size:31
Alignment explanation
Indices: 1061188--1061247 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
1061178 ACAATAAACC
*
1061188 ATATAAATTTAGAAAAAATATATATATATGT
1 ATATAAATTTAGAAAAAACATATATATATGT
1061219 ATATAAATTTCA-AAAAAAGCATATATATA
1 ATATAAATTT-AGAAAAAA-CATATATATA
1061248 AATTTCAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (31 bp):
ATATAAATTTAGAAAAAACATATATATATGT
Found at i:1064523 original size:15 final size:15
Alignment explanation
Indices: 1064503--1064535 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1064493 TCTTAGCCAA
*
1064503 TCCCCCAATAGTCAT
1 TCCCCCAATAATCAT
1064518 TCCCCCAATAATCAT
1 TCCCCCAATAATCAT
1064533 TCC
1 TCC
1064536 ATGCGAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.42, G:0.03, T:0.27
Consensus pattern (15 bp):
TCCCCCAATAATCAT
Found at i:1070564 original size:28 final size:28
Alignment explanation
Indices: 1070503--1070573 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
1070493 TCAAGCACTA
* *
1070503 ACTCGATGATATAATGTTTCAAACTTTG
1 ACTCGACGACATAATGTTTCAAACTTTG
* * *
1070531 ACTCGATGGCATAATGTTTC-AAGTATTG
1 ACTCGACGACATAATGTTTCAAACT-TTG
*
1070559 ATTCGACGACATAAT
1 ACTCGACGACATAAT
1070574 ATAAACAAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
27 3 0.08
28 33 0.92
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.35
Consensus pattern (28 bp):
ACTCGACGACATAATGTTTCAAACTTTG
Found at i:1079632 original size:16 final size:16
Alignment explanation
Indices: 1079611--1079641 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1079601 ATTACCCGAC
1079611 CTGTTTTCAACCTGAG
1 CTGTTTTCAACCTGAG
*
1079627 CTGTTTTTAACCTGA
1 CTGTTTTCAACCTGA
1079642 CTTGTAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (16 bp):
CTGTTTTCAACCTGAG
Found at i:1080140 original size:14 final size:14
Alignment explanation
Indices: 1080104--1080147 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
1080094 TCCATTTATA
*
1080104 TTAAGGTTTATGGT
1 TTAAAGTTTATGGT
**
1080118 TTATTGTTTATGGT
1 TTAAAGTTTATGGT
*
1080132 TTAAAGTTTAAGGT
1 TTAAAGTTTATGGT
1080146 TT
1 TT
1080148 CTATAAACCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (14 bp):
TTAAAGTTTATGGT
Found at i:1080215 original size:2 final size:2
Alignment explanation
Indices: 1080210--1080275 Score: 114
Period size: 2 Copynumber: 32.0 Consensus size: 2
1080200 TTATATAGTT
1080210 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1080252 TA TA TA TA TA TA TA CTA TA CTA TA
1 TA TA TA TA TA TA TA -TA TA -TA TA
1080276 CATGGTTTAT
Statistics
Matches: 62, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 58 0.94
3 4 0.06
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:1080671 original size:21 final size:21
Alignment explanation
Indices: 1080635--1080686 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1080625 TCCATTTACA
**
1080635 TTAGGGTTTAGTGTTTAGTG-T
1 TTAGGGTTTAAAGTTTAG-GAT
*
1080656 TTATGGTTTAAAGTTTAGGAT
1 TTAGGGTTTAAAGTTTAGGAT
1080677 TTAGGGTTTA
1 TTAGGGTTTA
1080687 TGATTTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (21 bp):
TTAGGGTTTAAAGTTTAGGAT
Found at i:1080671 original size:28 final size:27
Alignment explanation
Indices: 1080640--1080702 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 27
1080630 TTACATTAGG
* *
1080640 GTTTAGTGTTTAGTGTTTATGGTTTAAA
1 GTTTAG-GTTTAGGGTTTATGATTTAAA
1080668 GTTTAGGATTTAGGGTTTATGATTTAAA
1 GTTTAGG-TTTAGGGTTTATGATTTAAA
1080696 GTTTAGG
1 GTTTAGG
1080703 GTTTCTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 1 0.03
28 31 0.97
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (27 bp):
GTTTAGGTTTAGGGTTTATGATTTAAA
Found at i:1080706 original size:7 final size:7
Alignment explanation
Indices: 1080635--1080706 Score: 54
Period size: 7 Copynumber: 10.3 Consensus size: 7
1080625 TCCATTTACA
1080635 TTAGGGT
1 TTAGGGT
*
1080642 TTAGTGT
1 TTAGGGT
*
1080649 TTAGTGT
1 TTAGGGT
*
1080656 TTATGGT
1 TTAGGGT
**
1080663 TTAAAGT
1 TTAGGGT
*
1080670 TTAGGAT
1 TTAGGGT
1080677 TTAGGGT
1 TTAGGGT
* *
1080684 TTATGAT
1 TTAGGGT
**
1080691 TTAAAGT
1 TTAGGGT
1080698 TTAGGGT
1 TTAGGGT
1080705 TT
1 TT
1080707 CTATAAAACT
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (7 bp):
TTAGGGT
Found at i:1081435 original size:14 final size:15
Alignment explanation
Indices: 1081397--1081435 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
1081387 AGGGGTTAGG
1081397 GTTTAGGG-TTAAAA
1 GTTTAGGGTTTAAAA
*
1081411 GTTTAGGGTTTATAA
1 GTTTAGGGTTTAAAA
1081426 -TTTAGGGTTT
1 GTTTAGGGTTT
1081436 TTTTTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (15 bp):
GTTTAGGGTTTAAAA
Found at i:1081555 original size:25 final size:24
Alignment explanation
Indices: 1081527--1081575 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
1081517 TAATATAACT
*
1081527 TATAATTTATAAACTATATATTTTA
1 TATAATTTATAAA-TATATAGTTTA
*
1081552 TATAATTTATACATATATAGTTTA
1 TATAATTTATAAATATATAGTTTA
1081576 CATACATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (24 bp):
TATAATTTATAAATATATAGTTTA
Found at i:1081835 original size:39 final size:39
Alignment explanation
Indices: 1081780--1081866 Score: 106
Period size: 39 Copynumber: 2.3 Consensus size: 39
1081770 CCAAATAAAA
* *
1081780 TCTAAA-TTCTCAATTTCCCTCCAAAATTTTCTA-TTCCC
1 TCTAAATTTCTCAATTTCCCT-CAAAATTCTCAATTTCCC
* * *
1081818 TCTAAATTTTTCAATTTCCCTCTAAATTCTCAATTTCTC
1 TCTAAATTTCTCAATTTCCCTCAAAATTCTCAATTTCCC
1081857 TCTAAATTTC
1 TCTAAATTTC
1081867 CAAATAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
38 15 0.37
39 26 0.63
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.46
Consensus pattern (39 bp):
TCTAAATTTCTCAATTTCCCTCAAAATTCTCAATTTCCC
Found at i:1081859 original size:19 final size:19
Alignment explanation
Indices: 1081780--1081864 Score: 100
Period size: 19 Copynumber: 4.4 Consensus size: 19
1081770 CCAAATAAAA
1081780 TCTAAATTCTCAATTTCCC
1 TCTAAATTCTCAATTTCCC
* * *
1081799 TCCAAAATTTTCTA-TTCCC
1 T-CTAAATTCTCAATTTCCC
*
1081818 TCTAAATTTTTCAATTTCCC
1 TCTAAA-TTCTCAATTTCCC
*
1081838 TCTAAATTCTCAATTTCTC
1 TCTAAATTCTCAATTTCCC
1081857 TCTAAATT
1 TCTAAATT
1081865 TCCAAATAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
18 4 0.07
19 32 0.57
20 20 0.36
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.46
Consensus pattern (19 bp):
TCTAAATTCTCAATTTCCC
Found at i:1082034 original size:18 final size:18
Alignment explanation
Indices: 1081950--1082048 Score: 87
Period size: 18 Copynumber: 5.5 Consensus size: 18
1081940 TATACTAAAT
*
1081950 TAATATAAATTATAGTTTA
1 TAATATATA-TATAGTTTA
**
1081969 TAA-ACTATATATTTTTTA
1 TAATA-TATATATAGTTTA
* **
1081987 TAATTTATATATAACTTA
1 TAATATATATATAGTTTA
1082005 TAATA-ATTATATAGTTTA
1 TAATATA-TATATAGTTTA
*
1082023 TAATATAAATATAGTTTA
1 TAATATATATATAGTTTA
1082041 T-ATATATA
1 TAATATATA
1082049 GTTTATATAT
Statistics
Matches: 64, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
17 7 0.11
18 50 0.78
19 7 0.11
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (18 bp):
TAATATATATATAGTTTA
Found at i:1082042 original size:36 final size:36
Alignment explanation
Indices: 1081950--1082042 Score: 98
Period size: 36 Copynumber: 2.6 Consensus size: 36
1081940 TATACTAAAT
* **
1081950 TAATATAAATTATAGTTTATAAACTATATATTTTTTA
1 TAATATAAA-TATAGTTTATAAAATATATATAGTTTA
* * **
1081987 TAATTTATATATAACTTATAATAAT-TATATAGTTTA
1 TAATATAAATATAGTTTATAA-AATATATATAGTTTA
1082023 TAATATAAATATAGTTTATA
1 TAATATAAATATAGTTTATA
1082043 TATATAGTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
36 35 0.80
37 9 0.20
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (36 bp):
TAATATAAATATAGTTTATAAAATATATATAGTTTA
Found at i:1082046 original size:2 final size:2
Alignment explanation
Indices: 1082021--1082088 Score: 59
Period size: 2 Copynumber: 33.5 Consensus size: 2
1082011 TTATATAGTT
* * * *
1082021 TA TA -A TA TA AA TA TA GTT TA TA TA TA TA GTT TA TA TA TA AA CT-
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA -TA
1082064 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1082089 TTCAATTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
1 2 0.04
2 49 0.92
3 2 0.04
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1082050 original size:31 final size:30
Alignment explanation
Indices: 1081967--1082088 Score: 112
Period size: 31 Copynumber: 4.1 Consensus size: 30
1081957 AATTATAGTT
* * *
1081967 TATAAACTATATAT-TTTTTATAATTTATA
1 TATAAACTATATATATATATATAGTTTATA
1081996 TAT-AACT-TATA-ATAATTATATAGTTTATAA
1 TATAAACTATATATAT-A-TATATAGTTTAT-A
*
1082026 TATAAA-TATAGTTTATATATATAGTTTATA
1 TATAAACTATA-TATATATATATAGTTTATA
*
1082056 TATAAACTTATATATATATATATA-TATATA
1 TATAAAC-TATATATATATATATAGTTTATA
1082086 TAT
1 TAT
1082089 TTCAATTTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
27 5 0.06
28 4 0.05
29 13 0.17
30 20 0.26
31 27 0.35
32 6 0.08
33 2 0.03
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (30 bp):
TATAAACTATATATATATATATAGTTTATA
Found at i:1082071 original size:29 final size:29
Alignment explanation
Indices: 1081967--1082087 Score: 108
Period size: 29 Copynumber: 4.1 Consensus size: 29
1081957 AATTATAGTT
* * *
1081967 TATAAAC-TATATATTTTTTATAATTTATA
1 TATAAACTTATATA-TATATATAGTTTATA
1081996 TAT-AACTTATA-ATAATTATATAGTTTATAA
1 TATAAACTTATATAT-A-TATATAGTTTAT-A
*
1082026 TATAAA-TATAGTTTATATATATAGTTTATA
1 TATAAACT-TA-TATATATATATAGTTTATA
*
1082056 TATAAACTTATATATATATATA-TATATA
1 TATAAACTTATATATATATATAGTTTATA
1082084 TATA
1 TATA
1082088 TTTCAATTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
27 1 0.01
28 13 0.17
29 28 0.36
30 14 0.18
31 17 0.22
32 2 0.03
33 2 0.03
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (29 bp):
TATAAACTTATATATATATATAGTTTATA
Found at i:1083267 original size:21 final size:23
Alignment explanation
Indices: 1083226--1083267 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1083216 ATAATTATTT
*
1083226 TATTTTATTTTAAAATGTAAACA
1 TATTTTATTTAAAAATGTAAACA
1083249 TATTTT-TTTAAAAAT-TAAA
1 TATTTTATTTAAAAATGTAAA
1083268 TGATGAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 8 0.44
23 6 0.33
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TATTTTATTTAAAAATGTAAACA
Found at i:1085002 original size:16 final size:14
Alignment explanation
Indices: 1084972--1084999 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1084962 TTATTAAAAA
1084972 TTTTAAAAATATAT
1 TTTTAAAAATATAT
1084986 TTTTAAAAATATAT
1 TTTTAAAAATATAT
1085000 ATTATACAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTTAAAAATATAT
Found at i:1085015 original size:2 final size:2
Alignment explanation
Indices: 1085010--1085039 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1085000 ATTATACAGA
1085010 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1085040 GTAATATAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1085468 original size:20 final size:20
Alignment explanation
Indices: 1085412--1085469 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
1085402 ATAATCTATT
1085412 ATATATATTCAATTTTTTTA
1 ATATATATTCAATTTTTTTA
* * *
1085432 TTAAAT-TTTAATATTTTTTA
1 ATATATATTCAAT-TTTTTTA
1085452 ATATATATTCAATTTTTT
1 ATATATATTCAATTTTTT
1085470 AGTAATTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 5 0.17
20 20 0.67
21 5 0.17
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATATATTCAATTTTTTTA
Found at i:1085477 original size:38 final size:38
Alignment explanation
Indices: 1085412--1085484 Score: 105
Period size: 40 Copynumber: 1.9 Consensus size: 38
1085402 ATAATCTATT
*
1085412 ATATATATTCAATTTTTTTATTAAATTTTAATATTTTTTA
1 ATATATATTCAATTTTTTTAGTAAA-TTTAAT-TTTTTTA
1085452 ATATATATTCAA-TTTTTTAGT-AATTTAATTTTT
1 ATATATATTCAATTTTTTTAGTAAATTTAATTTTT
1085485 ATTTAGTGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 4 0.12
37 6 0.19
38 2 0.06
39 8 0.25
40 12 0.38
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (38 bp):
ATATATATTCAATTTTTTTAGTAAATTTAATTTTTTTA
Found at i:1085487 original size:27 final size:26
Alignment explanation
Indices: 1085448--1085510 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
1085438 TTTAATATTT
* *
1085448 TTTAATATATATTCAAT-TTTTTAGTAA
1 TTTAATTTTTATTCAATGTTTTTA-T-A
* *
1085475 TTTAATTTTTATTTAGTGTTTTTATA
1 TTTAATTTTTATTCAATGTTTTTATA
1085501 TTTAATTTTT
1 TTTAATTTTT
1085511 TGAATACTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 11 0.35
27 14 0.45
28 6 0.19
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (26 bp):
TTTAATTTTTATTCAATGTTTTTATA
Found at i:1085678 original size:21 final size:21
Alignment explanation
Indices: 1085654--1085700 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
1085644 TCAACCATTA
* *
1085654 TAGATTATCATGTCAGCATCG
1 TAGACTATCACGTCAGCATCG
1085675 TAGACTATCACGTCAGCATCG
1 TAGACTATCACGTCAGCATCG
1085696 TAGAC
1 TAGAC
1085701 CATCGCATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (21 bp):
TAGACTATCACGTCAGCATCG
Found at i:1087147 original size:65 final size:65
Alignment explanation
Indices: 1086950--1087208 Score: 389
Period size: 65 Copynumber: 4.0 Consensus size: 65
1086940 TATCATGTAG
* * *
1086950 TCACTCCACCTCATGCACCACAAAGGCACATGAGTCATATGAGTGGTATGTACAATATTCAATTA
1 TCACTCCACCTCATGCACCACAAAAGTACATGAGTCATATGAGTGGTCTGTACAATATTCAATTA
* * * *
1087015 TCACTCCACCTCATGTACCAC-AAAG--GATGAGTCATATGAGTGGTTTGTACAGTATTCAATTA
1 TCACTCCACCTCATGCACCACAAAAGTACATGAGTCATATGAGTGGTCTGTACAATATTCAATTA
* * *
1087077 TCACTCCACTTCATGCACCACAAAAGTACATAAGTCATATGAGTGGTCTATACAATATTCAATTA
1 TCACTCCACCTCATGCACCACAAAAGTACATGAGTCATATGAGTGGTCTGTACAATATTCAATTA
* *
1087142 TCACTCCACCTTATGCACCACAAAGGTACATGAGTCATATGAGTGGTCTGTACAATATTCAATTA
1 TCACTCCACCTCATGCACCACAAAAGTACATGAGTCATATGAGTGGTCTGTACAATATTCAATTA
1087207 TC
1 TC
1087209 TCATCTTTAA
Statistics
Matches: 174, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
62 53 0.30
63 4 0.02
64 3 0.02
65 114 0.66
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (65 bp):
TCACTCCACCTCATGCACCACAAAAGTACATGAGTCATATGAGTGGTCTGTACAATATTCAATTA
Found at i:1089867 original size:31 final size:31
Alignment explanation
Indices: 1089825--1089905 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 31
1089815 ATTTCGGGTT
* *
1089825 GGGTCGAGTCGGGTTTCTAATTCAT-ATATTC
1 GGGTCGGGTCGGGTTTCTAAGT-ATGATATTC
* *
1089856 GGGTCGGGTCGGGGTTTTTTAAGTGTGATATTC
1 GGGTCGGGTC-GGG-TTTCTAAGTATGATATTC
1089889 GGGTCGGGTTCGGGTTT
1 GGGTCGGG-TCGGGTTT
1089906 AGGGTGAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
31 9 0.21
32 7 0.17
33 24 0.57
34 2 0.05
ACGTcount: A:0.12, C:0.12, G:0.37, T:0.38
Consensus pattern (31 bp):
GGGTCGGGTCGGGTTTCTAAGTATGATATTC
Found at i:1090473 original size:18 final size:18
Alignment explanation
Indices: 1090430--1090474 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
1090420 TGGAATTGGA
1090430 TTCCAATTCCTGACAGAT
1 TTCCAATTCCTGACAGAT
1090448 TT-CAATTCCTTCG-CAG-T
1 TTCCAATTCC-T-GACAGAT
1090465 TTCCAATTCC
1 TTCCAATTCC
1090475 CTCAGAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 10 0.42
18 13 0.54
19 1 0.04
ACGTcount: A:0.22, C:0.31, G:0.09, T:0.38
Consensus pattern (18 bp):
TTCCAATTCCTGACAGAT
Found at i:1093957 original size:173 final size:173
Alignment explanation
Indices: 1093668--1094010 Score: 686
Period size: 173 Copynumber: 2.0 Consensus size: 173
1093658 GAAACGTACT
1093668 TTTTGCAAGACAAGTTTTTCTTTTCCACACATAAAATCATTGTAAATTTGAAGTTTGTACTGTTA
1 TTTTGCAAGACAAGTTTTTCTTTTCCACACATAAAATCATTGTAAATTTGAAGTTTGTACTGTTA
1093733 ACTGAACTTATAGTACCTTCACCTTTTTATGCAAATTTAAAAGGAAAATGGAGGATAATATCTAT
66 ACTGAACTTATAGTACCTTCACCTTTTTATGCAAATTTAAAAGGAAAATGGAGGATAATATCTAT
1093798 AAACTATATGGAAACGTGTATTTTCTTACCAGCTTTCTTTTAC
131 AAACTATATGGAAACGTGTATTTTCTTACCAGCTTTCTTTTAC
1093841 TTTTGCAAGACAAGTTTTTCTTTTCCACACATAAAATCATTGTAAATTTGAAGTTTGTACTGTTA
1 TTTTGCAAGACAAGTTTTTCTTTTCCACACATAAAATCATTGTAAATTTGAAGTTTGTACTGTTA
1093906 ACTGAACTTATAGTACCTTCACCTTTTTATGCAAATTTAAAAGGAAAATGGAGGATAATATCTAT
66 ACTGAACTTATAGTACCTTCACCTTTTTATGCAAATTTAAAAGGAAAATGGAGGATAATATCTAT
1093971 AAACTATATGGAAACGTGTATTTTCTTACCAGCTTTCTTT
131 AAACTATATGGAAACGTGTATTTTCTTACCAGCTTTCTTT
1094011 CGACCTCGTG
Statistics
Matches: 170, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
173 170 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (173 bp):
TTTTGCAAGACAAGTTTTTCTTTTCCACACATAAAATCATTGTAAATTTGAAGTTTGTACTGTTA
ACTGAACTTATAGTACCTTCACCTTTTTATGCAAATTTAAAAGGAAAATGGAGGATAATATCTAT
AAACTATATGGAAACGTGTATTTTCTTACCAGCTTTCTTTTAC
Found at i:1100775 original size:16 final size:16
Alignment explanation
Indices: 1100754--1100787 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1100744 TTACTATTCA
*
1100754 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
1100770 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
1100786 CG
1 CG
1100788 GTCGGCGATA
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:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:1138270 original size:24 final size:24
Alignment explanation
Indices: 1138243--1138304 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
1138233 ATCAAGTTTG
1138243 CAATTAAA-TGAACTGTGTAACATT
1 CAATTAAAGT-AACTGTGTAACATT
1138267 CAATTAAAGTAACTGTGTAACATT
1 CAATTAAAGTAACTGTGTAACATT
1138291 CAATTAAAGTAACT
1 CAATTAAAGTAACT
1138305 CAATTGTGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
24 36 0.97
25 1 0.03
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (24 bp):
CAATTAAAGTAACTGTGTAACATT
Found at i:1147153 original size:8 final size:8
Alignment explanation
Indices: 1147142--1147190 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
1147132 TTATATATAT
1147142 TTTTAATA
1 TTTTAATA
*
1147150 TTTTAATTT
1 TTTTAA-TA
1147159 TTTTAATA
1 TTTTAATA
*
1147167 TTTTTATA
1 TTTTAATA
*
1147175 TTTTAAAA
1 TTTTAATA
*
1147183 TTTCAATA
1 TTTTAATA
1147191 ATGTATTAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
8 26 0.79
9 7 0.21
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (8 bp):
TTTTAATA
Found at i:1147178 original size:17 final size:17
Alignment explanation
Indices: 1147137--1147178 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
1147127 TAAGTTTATA
1147137 TATATTTTTAATATTTT
1 TATATTTTTAATATTTT
* *
1147154 AATTTTTTTAATATTTT
1 TATATTTTTAATATTTT
1147171 TATATTTT
1 TATATTTT
1147179 AAAATTTCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATATTTTTAATATTTT
Found at i:1148835 original size:21 final size:21
Alignment explanation
Indices: 1148809--1148853 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1148799 GATTTCTGGG
* *
1148809 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
1148830 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1148851 CAA
1 CAA
1148854 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1152872 original size:31 final size:31
Alignment explanation
Indices: 1152837--1152899 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
1152827 GGTAATGTCA
* * *
1152837 GGGACCATATTGCAAACGGATTAAATGTTGG
1 GGGACCATATTACAAACGAACTAAATGTTGG
* *
1152868 GGGACTATATTATAAACGAACTAAATGTTGG
1 GGGACCATATTACAAACGAACTAAATGTTGG
1152899 G
1 G
1152900 AGACTGTATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.27
Consensus pattern (31 bp):
GGGACCATATTACAAACGAACTAAATGTTGG
Found at i:1159038 original size:15 final size:15
Alignment explanation
Indices: 1159018--1159049 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1159008 GATCGAGTTT
*
1159018 GGTTCGGGTCATTTC
1 GGTTCGGGTAATTTC
1159033 GGTTCGGGTAATTTC
1 GGTTCGGGTAATTTC
1159048 GG
1 GG
1159050 GTCTATATTA
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:0.09, C:0.16, G:0.38, T:0.38
Consensus pattern (15 bp):
GGTTCGGGTAATTTC
Found at i:1159285 original size:32 final size:31
Alignment explanation
Indices: 1159203--1159297 Score: 104
Period size: 32 Copynumber: 3.0 Consensus size: 31
1159193 GTCAATATCG
* *
1159203 GGTC-GGTCAATATCGA-ATCAGTTGATTTTTG
1 GGTCGGGTCAATATC-ATATCGGTTGA-TTTTC
* * *
1159234 GGTTGGGTTAATACCATATCGGTTAGATTTTC
1 GGTCGGGTCAATATCATATCGGTT-GATTTTC
1159266 GGTCGGGTCAATATCATATCGGTTGATTTTC
1 GGTCGGGTCAATATCATATCGGTTGATTTTC
1159297 G
1 G
1159298 ATTTAGGTCA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
31 12 0.23
32 39 0.74
33 2 0.04
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.39
Consensus pattern (31 bp):
GGTCGGGTCAATATCATATCGGTTGATTTTC
Found at i:1159554 original size:30 final size:30
Alignment explanation
Indices: 1159518--1159577 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
1159508 CCTATAATAC
1159518 GTGTTAGAATTTGTTATCAAAATTTTATAT
1 GTGTTAGAATTTGTTATCAAAATTTTATAT
* *
1159548 GTGTTAGAATTTGTTATCGAATTTTTATAT
1 GTGTTAGAATTTGTTATCAAAATTTTATAT
1159578 TAATCTCGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (30 bp):
GTGTTAGAATTTGTTATCAAAATTTTATAT
Found at i:1159947 original size:21 final size:19
Alignment explanation
Indices: 1159905--1159982 Score: 60
Period size: 19 Copynumber: 4.3 Consensus size: 19
1159895 TAAACTTTCT
*
1159905 ATTTTTTATTATAAATCTA
1 ATTTTTTATTATAAATATA
*
1159924 ATTTTTTTTTATAAATTATCA
1 ATTTTTTATTATAAA-TAT-A
1159945 A--TTTTATT-TAAAT-TA
1 ATTTTTTATTATAAATATA
* *
1159960 ATTTATTATT-CAAA-ATA
1 ATTTTTTATTATAAATATA
1159977 ATTTTT
1 ATTTTT
1159983 ATCGTTTAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
15 2 0.04
16 1 0.02
17 17 0.35
18 4 0.08
19 20 0.42
20 2 0.04
21 2 0.04
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTTTTATTATAAATATA
Found at i:1159968 original size:17 final size:16
Alignment explanation
Indices: 1159946--1159984 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
1159936 AAATTATCAA
* *
1159946 TTTTATTTAAATTAAT
1 TTTTATTCAAAATAAT
1159962 TTATTATTCAAAATAAT
1 TT-TTATTCAAAATAAT
1159979 TTTTAT
1 TTTTAT
1159985 CGTTTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTATTCAAAATAAT
Found at i:1163931 original size:22 final size:22
Alignment explanation
Indices: 1163905--1163946 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1163895 TGTAGGTTGT
*
1163905 TTTTGGTTCGGGTTAATTTCAG
1 TTTTGGTTCAGGTTAATTTCAG
1163927 TTTTGGTTCAGGTTAATTTC
1 TTTTGGTTCAGGTTAATTTC
1163947 GGTTCGAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.10, G:0.24, T:0.52
Consensus pattern (22 bp):
TTTTGGTTCAGGTTAATTTCAG
Found at i:1168157 original size:6 final size:6
Alignment explanation
Indices: 1168146--1168217 Score: 108
Period size: 6 Copynumber: 12.0 Consensus size: 6
1168136 ATGTTGCACC
* *
1168146 GATACG GATACG GATACG GATACG GATATG GATACG AATACG GATACG
1 GATACG GATACG GATACG GATACG GATACG GATACG GATACG GATACG
**
1168194 GATACG GGGACG GATACG GATACG
1 GATACG GATACG GATACG GATACG
1168218 AGGATGGGAA
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.33, C:0.15, G:0.35, T:0.17
Consensus pattern (6 bp):
GATACG
Found at i:1169322 original size:18 final size:18
Alignment explanation
Indices: 1169273--1169314 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1169263 ACAAAATAGT
* *
1169273 CCAGAAAGGAAAAACAAC
1 CCAGAAAAGAATAACAAC
1169291 CCAGAAAAGAATAACAAC
1 CCAGAAAAGAATAACAAC
1169309 CCAGAA
1 CCAGAA
1169315 TAAAATAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.60, C:0.24, G:0.14, T:0.02
Consensus pattern (18 bp):
CCAGAAAAGAATAACAAC
Found at i:1174236 original size:29 final size:29
Alignment explanation
Indices: 1174203--1174263 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
1174193 AAAATATATT
1174203 TTCGTTCCCTAG-AATTTTATAAGATCAAG
1 TTCG-TCCCTAGAAATTTTATAAGATCAAG
* * * *
1174232 TTCGTCTCTTGAAATTTTATAAGTTCATG
1 TTCGTCCCTAGAAATTTTATAAGATCAAG
1174261 TTC
1 TTC
1174264 ACCTCCTAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.44
Consensus pattern (29 bp):
TTCGTCCCTAGAAATTTTATAAGATCAAG
Found at i:1176236 original size:28 final size:28
Alignment explanation
Indices: 1176205--1176266 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
1176195 GTTTAAAATC
1176205 AAATTATAT-ATTTTTATATATATTTAAA
1 AAATTATATGATTTTTA-ATATATTTAAA
* * *
1176233 AAATT-TCTGATTTTTAATATTTTTTAA
1 AAATTATATGATTTTTAATATATTTAAA
1176260 AAATTAT
1 AAATTAT
1176267 TGTTTAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (28 bp):
AAATTATATGATTTTTAATATATTTAAA
Found at i:1176301 original size:25 final size:26
Alignment explanation
Indices: 1176247--1176301 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 26
1176237 TTCTGATTTT
* **
1176247 TAATATTTTTTAAAAATTATTGTTTA
1 TAATTTTTTTTAAAAATTATTAATTA
*
1176273 -AATTTTTTTTAAATATT-TTAATTA
1 TAATTTTTTTTAAAAATTATTAATTA
1176297 TAATT
1 TAATT
1176302 GAATGATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (26 bp):
TAATTTTTTTTAAAAATTATTAATTA
Found at i:1193223 original size:54 final size:54
Alignment explanation
Indices: 1193141--1193256 Score: 187
Period size: 54 Copynumber: 2.1 Consensus size: 54
1193131 ACATGAAGGA
* *
1193141 ACCCTTAAAACATCAAATGTCAGATTGGTATCGGTACCTTGAGGAGGTATCGAT
1 ACCCTTGAAACATCAAATGTCAGATTGGTATCGGTACCATGAGGAGGTATCGAT
* **
1193195 ACCCTTGAAACATCGAATGTCATTTTGGTATCGGTACCATGAGGAGGTATCGAT
1 ACCCTTGAAACATCAAATGTCAGATTGGTATCGGTACCATGAGGAGGTATCGAT
1193249 ACCCTTGA
1 ACCCTTGA
1193257 GTGGTGGTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 57 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (54 bp):
ACCCTTGAAACATCAAATGTCAGATTGGTATCGGTACCATGAGGAGGTATCGAT
Found at i:1193824 original size:21 final size:21
Alignment explanation
Indices: 1193798--1193913 Score: 87
Period size: 21 Copynumber: 5.3 Consensus size: 21
1193788 AGTAAAGGAT
1193798 TTATGTGGTCCTTCGGGACAA
1 TTATGTGGTCCTTCGGGACAA
*
1193819 TTATGTGGTCCTCCGGGACAA
1 TTATGTGGTCCTTCGGGACAA
*
1193840 ATATGTGG-CACTTCGGTG-CAA
1 TTATGTGGTC-CTTCGG-GACAA
1193861 TCCTATGTGG-CACTTCGGTG-CAAA
1 T--TATGTGGTC-CTTCGG-GAC-AA
* * *
1193885 CCTATGTGGTCATTCGGAACAA
1 -TTATGTGGTCCTTCGGGACAA
1193907 TTATGTG
1 TTATGTG
1193914 ACACTTCGGT
Statistics
Matches: 79, Mismatches: 8, Indels: 16
0.77 0.08 0.16
Matches are distributed among these distances:
20 1 0.01
21 41 0.52
22 3 0.04
23 31 0.39
24 3 0.04
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.31
Consensus pattern (21 bp):
TTATGTGGTCCTTCGGGACAA
Found at i:1193871 original size:23 final size:23
Alignment explanation
Indices: 1193841--1193927 Score: 108
Period size: 23 Copynumber: 3.9 Consensus size: 23
1193831 CCGGGACAAA
1193841 TATGTGGCACTTCGGTGCAATCC
1 TATGTGGCACTTCGGTGCAATCC
*
1193864 TATGTGGCACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTGCAATCC
**
1193887 TATGTGGTCA-TTCGGAACAAT--
1 TATGTGG-CACTTCGGTGCAATCC
*
1193908 TATGTGACACTTCGGTGCAA
1 TATGTGGCACTTCGGTGCAA
1193928 ATTACGAGCC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
20 2 0.04
21 14 0.25
23 37 0.67
24 2 0.04
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (23 bp):
TATGTGGCACTTCGGTGCAATCC
Found at i:1204508 original size:23 final size:26
Alignment explanation
Indices: 1204451--1204514 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 26
1204441 ATTTCAAAAT
* *
1204451 TATAATTATGAAAAAAAATAATTTATA
1 TATATTTAT-AAATAAAATAATTTATA
1204478 TATATTTATAAATAAAAT-ATTTAT-
1 TATATTTATAAATAAAATAATTTATA
*
1204502 T-TATTTAGAAATA
1 TATATTTATAAATA
1204515 TCAGAAAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.32
24 1 0.03
25 6 0.18
26 8 0.24
27 8 0.24
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (26 bp):
TATATTTATAAATAAAATAATTTATA
Found at i:1204588 original size:23 final size:22
Alignment explanation
Indices: 1204564--1204608 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1204554 CTTCGATATT
1204564 AATAAATATTAATATAATAATTTA
1 AATAAA-ATTAA-ATAATAATTTA
*
1204588 AATAAAATTAAATTATAATTT
1 AATAAAATTAAATAATAATTT
1204609 TTTATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAAAATTAAATAATAATTTA
Found at i:1204797 original size:22 final size:22
Alignment explanation
Indices: 1204772--1204817 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1204762 TTTATATGAC
*
1204772 TATATAA-TAATAATAAAAATAA
1 TATATAAGTAA-AATAAAAACAA
*
1204794 TATATAAGTAAAATTAAAACAA
1 TATATAAGTAAAATAAAAACAA
1204816 TA
1 TA
1204818 AAAATACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (22 bp):
TATATAAGTAAAATAAAAACAA
Found at i:1205963 original size:3 final size:3
Alignment explanation
Indices: 1205957--1206022 Score: 89
Period size: 3 Copynumber: 22.0 Consensus size: 3
1205947 TATTATTTTT
* *
1205957 TAA TAA TAA TAA TAA T-A TATA TTA TAA TAA TAA TAA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
*
1206002 TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
1206023 AAATGGGTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
2 2 0.04
3 51 0.93
4 2 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:1205985 original size:18 final size:15
Alignment explanation
Indices: 1205957--1206022 Score: 107
Period size: 15 Copynumber: 4.4 Consensus size: 15
1205947 TATTATTTTT
*
1205957 TAATAATAATAATAA
1 TAATAATTATAATAA
1205972 T-ATATATTATAATAA
1 TAATA-ATTATAATAA
1205987 TAATAATTATAATAA
1 TAATAATTATAATAA
1206002 TAATAATTATAATAA
1 TAATAATTATAATAA
1206017 TAATAA
1 TAATAA
1206023 AAATGGGTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
14 3 0.06
15 42 0.88
16 3 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAATAATTATAATAA
Found at i:1206309 original size:118 final size:118
Alignment explanation
Indices: 1206169--1206438 Score: 382
Period size: 120 Copynumber: 2.3 Consensus size: 118
1206159 ATTCTTCTCT
* * *
1206169 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTC-CGATGG-GGATGAAGTTGACCTATTTCCTT
1 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC--TGGAGGATGAAGCTAACCTATCTCCTT
* * * *
1206232 CTGTGATAGAGTCATTCAAAAGGTTGAATAAGCTCTTCTCATTGTGAACTTCTTC
64 CTGTAATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTC
* * * *
1206287 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAGGTTGATGCTAATCTATCTCTTT
1 TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG--AGGATGAAGCTAACCTATCTCCTT
*
1206352 CTGTAATAGAATTATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTC
64 CTGTAATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTC
1206407 TTCTTCAGATGAGTTCTTCTCATTATGAACTT
1 TTCTTCAGATGAGTTCTTCTCATTATGAACTT
1206439 CTTCTTCTTC
Statistics
Matches: 136, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
117 3 0.02
118 34 0.25
119 1 0.01
120 98 0.72
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (118 bp):
TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAGGATGAAGCTAACCTATCTCCTTCT
GTAATAGAATCATGCAAAAGGTTGAACAAGCTCTTCTCATTGTGAACTTCTTC
Found at i:1206425 original size:36 final size:36
Alignment explanation
Indices: 1206385--1206584 Score: 364
Period size: 36 Copynumber: 5.6 Consensus size: 36
1206375 TTGAACAAGC
*
1206385 TCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
1206421 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
1206457 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
1206493 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
* * *
1206529 TCTTCTAATTATGAACGTCTTCTTTTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
1206565 TCTTCTCATTATGAACTTCT
1 TCTTCTCATTATGAACTTCT
1206585 CTGGAAAAGC
Statistics
Matches: 158, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 158 1.00
ACGTcount: A:0.20, C:0.21, G:0.12, T:0.47
Consensus pattern (36 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
Found at i:1206841 original size:113 final size:112
Alignment explanation
Indices: 1206528--1206953 Score: 546
Period size: 113 Copynumber: 3.8 Consensus size: 112
1206518 TTCAGATGAG
* * *
1206528 TTCTTCTAATTATGAACGTCTTC-T-TT-TTCAGATGAGTTCTTCTCATTATGAACTTC--TCTG
1 TTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TCGAACTG
* * * * *
1206588 GAAAAGCTGAT-CATCAAGTGATGGATTTGAGCAAAAAGTTGAACAAA
65 GTAATGCTGATCCATCAAATGATGAATTTAAGCAAAAAGTTGAACAAA
* *
1206635 TTCTTCTCATTATGAA--T-TTCTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACC
1 TTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCGAAC
* * * * *
1206697 TGGCAATGTTAATCCATCAAATGATGAATTTAAACAAAAGGTTGAACAAA
63 TGGTAATGCTGATCCATCAAATGATGAATTTAAGCAAAAAGTTGAACAAA
*
1206747 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
** *
1206812 GTAATGCTGATCCATTGAATGATGAATTTAAGCAAAAAGTTGAACAAG
65 GTAATGCTGATCCATCAAATGATGAATTTAAGCAAAAAGTTGAACAAA
*
1206860 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
*
1206925 GTAATGCTGATCCATCAAATGATGGATTT
65 GTAATGCTGATCCATCAAATGATGAATTT
1206954 GAATCTTTGC
Statistics
Matches: 281, Mismatches: 25, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
104 3 0.01
105 2 0.01
106 2 0.01
107 22 0.08
109 2 0.01
110 20 0.07
111 10 0.04
112 47 0.17
113 156 0.56
114 1 0.00
115 5 0.02
116 11 0.04
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (112 bp):
TTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
TAATGCTGATCCATCAAATGATGAATTTAAGCAAAAAGTTGAACAAA
Found at i:1207853 original size:114 final size:114
Alignment explanation
Indices: 1207658--1207874 Score: 364
Period size: 114 Copynumber: 1.9 Consensus size: 114
1207648 TTTTAATTCC
* * * *
1207658 AATGATTGGTTCTGTGGTTCCTACCGAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATG
1 AATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
1207723 CTATTGGGTCTTCTTATTTCTACTATGAGCACATTCATATTTCAAATCT
66 CTATTGGGTCTTCTTATTTCTACTATGAGCACATTCATATTTCAAATCT
* *
1207772 AATGATTGGTTTTTGGGGTTCATACTAAACCAGATCAGATAACTCAAAGAACACTTCCA-AAGAT
1 AATGATTGG-TTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGAT
1207836 GCTATTGGGTCTTCTTATTTCTACTATGAGCACATTCAT
65 GCTATTGGGTCTTCTTATTTCTACTATGAGCACATTCAT
1207875 CTTGCTCCAA
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
114 53 0.55
115 43 0.45
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (114 bp):
AATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
CTATTGGGTCTTCTTATTTCTACTATGAGCACATTCATATTTCAAATCT
Found at i:1207909 original size:114 final size:114
Alignment explanation
Indices: 1207684--1207909 Score: 323
Period size: 114 Copynumber: 2.0 Consensus size: 114
1207674 GTTCCTACCG
*
1207684 AACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTAT
** **
1207749 GAGCACATTCATATTTCAAATCTAATGATTGGTTTTTGGGGTTCATACTA
66 GAGCACATTCATATTTCAAATCTAATGATTGG-TACTGGAATTCATACTA
1207799 AACCAGATCAGATAACTCAAAGAACACTTCCA-AAGATGCTATTGGGTCTTCTTATTTCTACTAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTAT
* * *
1207863 GAGCACATTCATCTTGCTCCAAT-TAATGTTTGG-ACTGGAATATCATA
66 GAGCACATTCATATT--TCAAATCTAATGATTGGTACTGGAAT-TCATA
1207910 GTACTTTATT
Statistics
Matches: 100, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
113 4 0.04
114 51 0.51
115 40 0.40
116 5 0.05
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.34
Consensus pattern (114 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTAT
GAGCACATTCATATTTCAAATCTAATGATTGGTACTGGAATTCATACTA
Found at i:1209286 original size:13 final size:13
Alignment explanation
Indices: 1209250--1209324 Score: 77
Period size: 13 Copynumber: 5.7 Consensus size: 13
1209240 CTTGACCCCC
1209250 TTTTTTCTTTT-T
1 TTTTTTCTTTTCT
1209262 TTTTCTT-TTTTCT
1 TTTT-TTCTTTTCT
1209275 TTTTTTCCTTTCTCT
1 TTTTTT-CTTT-TCT
1209290 TTTTTT-TTTTGCT
1 TTTTTTCTTTT-CT
1209303 TTTTTT-TTGTTCT
1 TTTTTTCTT-TTCT
1209316 TTTTTTCTT
1 TTTTTTCTT
1209325 CAAGCATAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 14
0.80 0.00 0.20
Matches are distributed among these distances:
12 11 0.20
13 28 0.51
14 7 0.13
15 9 0.16
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (13 bp):
TTTTTTCTTTTCT
Found at i:1216491 original size:15 final size:15
Alignment explanation
Indices: 1216468--1216499 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1216458 TGAAATGAAT
1216468 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
1216483 AATGTATGTATGCAA
1 AATGAATGTATGCAA
1216498 AA
1 AA
1216500 AGGTATTGAT
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:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:1220389 original size:23 final size:24
Alignment explanation
Indices: 1220329--1220390 Score: 63
Period size: 23 Copynumber: 2.6 Consensus size: 24
1220319 ATTTCAAAAT
* *
1220329 TATAATTATGAAAAAAAATTATATA
1 TATATTTA-GAAATAAAATTATATA
* *
1220354 TATATTTATAAATAAAA-TATTTA
1 TATATTTAGAAATAAAATTATATA
*
1220377 TTTATTTAGAAATA
1 TATATTTAGAAATA
1220391 TCAGAAAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
23 17 0.55
24 7 0.23
25 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (24 bp):
TATATTTAGAAATAAAATTATATA
Found at i:1220464 original size:23 final size:22
Alignment explanation
Indices: 1220440--1220484 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1220430 CTTCGATATT
1220440 AATAAATATTAATATAATAATTTA
1 AATAAA-ATTAA-ATAATAATTTA
*
1220464 AATAAAATTAAATTATAATTT
1 AATAAAATTAAATAATAATTT
1220485 TTTATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAAAATTAAATAATAATTTA
Found at i:1220673 original size:22 final size:22
Alignment explanation
Indices: 1220648--1220693 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1220638 TTTATATGAC
*
1220648 TATATAA-TAATAATAAAAATAA
1 TATATAAGTAA-AATAAAAACAA
*
1220670 TATATAAGTAAAATTAAAACAA
1 TATATAAGTAAAATAAAAACAA
1220692 TA
1 TA
1220694 AAAATACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (22 bp):
TATATAAGTAAAATAAAAACAA
Found at i:1221960 original size:3 final size:3
Alignment explanation
Indices: 1221954--1222007 Score: 92
Period size: 3 Copynumber: 18.0 Consensus size: 3
1221944 ATTATTTTTT
1221954 TAA TAA TAA TAA TAA TATA TAA T-A TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
1221999 TAA TAA TAA
1 TAA TAA TAA
1222008 AAATGGGTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1233377 original size:22 final size:22
Alignment explanation
Indices: 1233352--1233408 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
1233342 CTCGTGGAGA
1233352 AGATATGATAACTACTATAGAC
1 AGATATGATAACTACTATAGAC
1233374 AGATATGATAACTACTATAGAC
1 AGATATGATAACTACTATAGAC
1233396 AGATATGA-AACTA
1 AGATATGATAACTA
1233409 AAAGGTGAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 5 0.14
22 30 0.86
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.26
Consensus pattern (22 bp):
AGATATGATAACTACTATAGAC
Found at i:1233903 original size:34 final size:34
Alignment explanation
Indices: 1233860--1233927 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
1233850 TATGTAAGCA
1233860 AATTTTCACTGCAATTGGTGATATTCTTTATGCT
1 AATTTTCACTGCAATTGGTGATATTCTTTATGCT
1233894 AATTTTCACTGCAATTGGTGATATTCTTTATGCT
1 AATTTTCACTGCAATTGGTGATATTCTTTATGCT
1233928 TGGAACCTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47
Consensus pattern (34 bp):
AATTTTCACTGCAATTGGTGATATTCTTTATGCT
Found at i:1236364 original size:29 final size:31
Alignment explanation
Indices: 1236330--1236397 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 31
1236320 TTTGGTTAGT
1236330 GACCAAAATATAAAATTT-G-AAAGTTTAGTA
1 GACCAAAATATAAAATTTGGAAAAGTTTA-TA
* *
1236360 G-CCAAAGTATAAAGTTTGGAAAAGTTTATA
1 GACCAAAATATAAAATTTGGAAAAGTTTATA
1236390 GACCAAAA
1 GACCAAAA
1236398 GGTAATTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 14 0.44
30 5 0.16
31 13 0.41
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.26
Consensus pattern (31 bp):
GACCAAAATATAAAATTTGGAAAAGTTTATA
Found at i:1237648 original size:19 final size:20
Alignment explanation
Indices: 1237606--1237650 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
1237596 ACTATGCTGA
*
1237606 AAATTAATGTTAGAGTGTTG
1 AAATTGATGTTAGAGTGTTG
1237626 AAATTGATGTTAG-GATG-TG
1 AAATTGATGTTAGAG-TGTTG
1237645 AAATTG
1 AAATTG
1237651 GGCCATTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.38
Consensus pattern (20 bp):
AAATTGATGTTAGAGTGTTG
Found at i:1238510 original size:34 final size:34
Alignment explanation
Indices: 1238472--1238539 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
1238462 TAAACTAGAC
1238472 TAAGTGACTTATATGGTTAGATTCTTATTTGAGT
1 TAAGTGACTTATATGGTTAGATTCTTATTTGAGT
1238506 TAAGTGACTTATATGGTTAGATTCTTATTTGAGT
1 TAAGTGACTTATATGGTTAGATTCTTATTTGAGT
1238540 CTAGTTTCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.06, G:0.21, T:0.47
Consensus pattern (34 bp):
TAAGTGACTTATATGGTTAGATTCTTATTTGAGT
Found at i:1238524 original size:17 final size:17
Alignment explanation
Indices: 1238472--1238524 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
1238462 TAAACTAGAC
1238472 TAAGTGACTTATATGGT
1 TAAGTGACTTATATGGT
* *
1238489 T-AGAT-TCTTATTTGAGT
1 TAAG-TGACTTATATG-GT
1238506 TAAGTGACTTATATGGT
1 TAAGTGACTTATATGGT
1238523 TA
1 TA
1238525 GATTCTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
16 9 0.32
17 10 0.36
18 9 0.32
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (17 bp):
TAAGTGACTTATATGGT
Found at i:1248439 original size:87 final size:87
Alignment explanation
Indices: 1248210--1248442 Score: 272
Period size: 90 Copynumber: 2.6 Consensus size: 87
1248200 TTATCGGTAT
* * *
1248210 CAATGGTACTGCTTGCTGTTCTGGAAATACATTTCTTCTCAACTTTGGATTCATCCATCAGTTCC
1 CAATGGTACTGCTTGCTGTTCGGGAAA-AGATTTCTTCTCAACTTTGCATTCATCCATCAGTTCC
*
1248275 GCACCCTTTTCCGAATCAGAATCAA
65 GCACCCTTTCCCGAATCAG-A-CAA
* *
1248300 CAATGGTACTGCTTGCTGATTCGGGAAAGGATTTCTTCTCAACTTTGCATTCATCCATCTGTTCC
1 CAATGGTACTGCTTGCTG-TTCGGGAAAAGATTTCTTCTCAACTTTGCATTCATCCATCAGTTCC
* *
1248365 GTACTCTTTCCCGAATCAG-CAA
65 GCACCCTTTCCCGAATCAGACAA
* * * ** *
1248387 CCATGGTACTGGTTGCTGTTTC-GGACAAAGAGTTCTTCTCGGCTTTGTATTCATCC
1 CAATGGTACTGCTTGCTG-TTCGGGA-AAAGATTTCTTCTCAACTTTGCATTCATCC
1248443 GAATCAGCAT
Statistics
Matches: 125, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
86 3 0.02
87 47 0.38
90 67 0.54
91 8 0.06
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (87 bp):
CAATGGTACTGCTTGCTGTTCGGGAAAAGATTTCTTCTCAACTTTGCATTCATCCATCAGTTCCG
CACCCTTTCCCGAATCAGACAA
Found at i:1252857 original size:14 final size:15
Alignment explanation
Indices: 1252716--1252863 Score: 181
Period size: 15 Copynumber: 9.5 Consensus size: 15
1252706 TAATAAGGCT
1252716 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
1252731 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
1252746 ATTTATTATAAAAAA
1 ATTTATTTTAAAATA
1252761 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
1252776 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
1252791 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
1252806 AATTATTATAAAATATAGA
1 ATTTATT-TTAAA-AT--A
1252825 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
1252843 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
1252857 ATTTATT
1 ATTTATT
1252864 AGTATGGATT
Statistics
Matches: 116, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
14 12 0.10
15 84 0.72
16 4 0.03
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 4 0.03
22 6 0.05
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:1252881 original size:32 final size:32
Alignment explanation
Indices: 1252843--1253044 Score: 167
Period size: 32 Copynumber: 7.2 Consensus size: 32
1252833 TTTTAAAATA
1252843 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1252875 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
1252897 ATTTATTTTAAATAATTTATTAGTATCGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1252929 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
1252951 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1252983 ATTTATTTT--A-AA---A-TA-TA--GATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
1253005 ATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
1253037 ATTTATTT
1 ATTTATTT
1253045 GAAAATATGG
Statistics
Matches: 135, Mismatches: 5, Indels: 60
0.68 0.03 0.30
Matches are distributed among these distances:
22 40 0.30
23 8 0.06
24 3 0.02
25 6 0.04
26 7 0.05
28 7 0.05
29 5 0.04
30 3 0.02
31 8 0.06
32 48 0.36
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.53
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:1252882 original size:22 final size:22
Alignment explanation
Indices: 1252866--1252908 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1252856 AATTTATTAG
1252866 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
1252888 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
1252909 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:1252900 original size:69 final size:67
Alignment explanation
Indices: 1252761--1252918 Score: 203
Period size: 69 Copynumber: 2.3 Consensus size: 67
1252751 TTATAAAAAA
1252761 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATAGAT
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATAGAT
1252826 TG
66 TG
* ** * * * * *
1252828 ATTTATTTTAAAATAATTTATT-TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATT--T-TAAAATAAATTATTATAAAATATA
1252892 GATTG
63 GATTG
1252897 ATTTATTTT-AAATAATTTATTA
1 ATTTATTTTAAAATAATTTATTA
1252919 GTATCGATTG
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
66 13 0.16
67 22 0.28
68 13 0.16
69 31 0.39
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (67 bp):
ATTTATTTTAAAATAATTTATTATAAAATAATTTATTTTAAAATAAATTATTATAAAATATAGAT
TG
Found at i:1252908 original size:54 final size:54
Alignment explanation
Indices: 1252843--1253620 Score: 486
Period size: 54 Copynumber: 14.4 Consensus size: 54
1252833 TTTTAAAATA
1252843 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
1252897 ATTTATTTTAAATAATTTATTAGTATCGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
1252951 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
1253005 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTGAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * *
1253059 ATTTA--TT--AT--TGTAGTT-TTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * * *** *
1253103 ATTTGTATTGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATTGATTG
1 ATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
*
1253165 ATTTATTTTAAATAATTTATTAGTATCGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
1253219 ATTTA--TT--AT--TGTAGTT-GTATGGATTAATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G---G-ATTG
* * * *
1253277 ATTTATTTT-AA-AA--TA-TAG-ATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGA-TTT--AT--TTTA-AAATATGGATTG
** ** * ** * * * *
1253331 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATAGATTG
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTG
*
1253385 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
1253439 ATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTG
* * * *** *
1253497 ATTTATTTT-AA-AA--TA-TAG-ATTGATTTA-TTATTGTAGTTGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTG
*
1253545 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1253599 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
1253621 TTGTAGTTGT
Statistics
Matches: 576, Mismatches: 72, Indels: 152
0.72 0.09 0.19
Matches are distributed among these distances:
44 7 0.01
46 2 0.00
47 5 0.01
48 76 0.13
49 13 0.02
50 13 0.02
51 2 0.00
52 13 0.02
53 6 0.01
54 283 0.49
55 26 0.05
56 11 0.02
57 7 0.01
58 61 0.11
59 13 0.02
60 12 0.02
61 4 0.01
62 19 0.03
63 3 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:1253040 original size:18 final size:19
Alignment explanation
Indices: 1253019--1253065 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 19
1253009 ATTTTAAATA
1253019 ATTTATTTG-TATGGATTG
1 ATTTATTTGATATGGATTG
1253037 ATTTATTTGAAAATATGGATTG
1 ATTTATTTG---ATATGGATTG
1253059 ATTTATT
1 ATTTATT
1253066 ATTGTAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.36
22 16 0.64
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (19 bp):
ATTTATTTGATATGGATTG
Found at i:1253096 original size:80 final size:80
Alignment explanation
Indices: 1252843--1253305 Score: 537
Period size: 80 Copynumber: 5.8 Consensus size: 80
1252833 TTTTAAAATA
1252843 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT--
* *
1252908 ATAATTTA-TTAGTATCGATTG
62 AT--TGTAGTT-GTATGGATTG
** ** * ** * * * *
1252929 ATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGAATTGATTTA-T-
1 ATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTA
*** *
1252989 TT-TA-AAATATAGATTG
63 TTGTAGTTGTATGGATTG
* *
1253005 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTGAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
*
1253070 TAGTTTTATGGATTG
66 TAGTTGTATGGATTG
* *
1253085 ATTTATTTTAAATAATTTATTTGTATTGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
*
1253150 TAGTTGTATTGATTG
66 TAGTTGTATGGATTG
*
1253165 ATTTATTTTAAATAATTTATTAGTATCGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
*
1253230 TAGTTGTATGGATTA
66 TAGTTGTATGGATTG
* *
1253245 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATTGATTTATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
1253306 TTAAATAATT
Statistics
Matches: 325, Mismatches: 42, Indels: 26
0.83 0.11 0.07
Matches are distributed among these distances:
76 39 0.12
77 13 0.04
78 6 0.02
79 2 0.01
80 219 0.67
83 1 0.00
84 3 0.01
85 11 0.03
86 31 0.10
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (80 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
TAGTTGTATGGATTG
Found at i:1253124 original size:22 final size:22
Alignment explanation
Indices: 1253099--1253172 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
1253089 ATTTTAAATA
1253099 ATTTATTTGTATTGATTGATTT
1 ATTTATTTGTATTGATTGATTT
* * *
1253121 ATTTTAAAATATGGATTGATTTA-TT
1 A-TTT---ATTTGTATTGATTGATTT
*
1253146 ATTGTAGTTGTATTGATTGATTT
1 ATT-TATTTGTATTGATTGATTT
1253169 ATTT
1 ATTT
1253173 TAAATAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
22 13 0.33
23 8 0.21
24 2 0.05
25 4 0.10
26 12 0.31
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (22 bp):
ATTTATTTGTATTGATTGATTT
Found at i:1253212 original size:160 final size:157
Alignment explanation
Indices: 1252843--1253607 Score: 796
Period size: 160 Copynumber: 4.9 Consensus size: 157
1252833 TTTTAAAATA
1252843 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT--
* * * * * * * *
1252908 ATAATTTA-TTAGTATCGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA--
62 AT--TGTAGTT-GTATGGATTGATTTATTTT-AAATA---ATTTATTTGTATTGATTGATTTATT
* *
1252970 TT--AGTATGAATTGATTTA-TTTTAAAATATAGATTG
120 TTAAAATATGGATTGATTTATTTTTAAAATATAGATTG
* *
1253005 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTGAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
*
1253070 TAGTTTTATGGATTGATTTATTTTAAATAATTTATTTGTATTGATTGATTTATTTTAAAATATGG
66 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTTGTATTGATTGATTTATTTTAAAATATGG
*** *
1253135 ATTGATTTATTATTGTAGTTGTATTGATTG
131 ATTGATTTATT-TT-TA-AAATATAGATTG
*
1253165 ATTTATTTTAAATAATTTATTAGTATCGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
* * *
1253230 TAGTTGTATGGATTAATTTATTTTAAATAATTTATTAGTA-TGAATTGATTTATTTTAAAATATA
66 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTTGTATTG-ATTGATTTATTTTAAAATATG
* *
1253294 GATTGATTTATTTTAAATAATTTATTAGTATGG
130 GATTGATTTATTTTTAA-AA--TA-TAG-ATTG
* * *
1253327 ATTGA-TTT--AT--TTTA-AAATATGGATTGATTTATTTT--AA-AT--A---ATTTATTA--G
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
*
1253376 TA----TA--GATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGG
66 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTTGTATTGATTGATTTATTTTAAAATATGG
*** *
1253435 ATTGATTTATTATTGTAGTTGTATGGATTG
131 ATTGATTTATT-TT-TA-AAATATAGATTG
*
1253465 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
* * * *
1253530 TAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAG
66 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTTGTATTGATTGATTTATTTTAAAATATGG
1253595 ATTGATTTATTTT
131 ATTGATTTATTTT
1253608 AAATAATTTA
Statistics
Matches: 512, Mismatches: 50, Indels: 85
0.79 0.08 0.13
Matches are distributed among these distances:
138 7 0.01
139 5 0.01
140 62 0.12
141 5 0.01
142 3 0.01
143 4 0.01
144 19 0.04
146 5 0.01
147 2 0.00
148 8 0.02
149 1 0.00
151 1 0.00
152 25 0.05
153 2 0.00
154 7 0.01
155 5 0.01
156 52 0.10
157 7 0.01
158 7 0.01
159 10 0.02
160 206 0.40
161 5 0.01
162 64 0.12
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (157 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
TAGTTGTATGGATTGATTTATTTTAAATAATTTATTTGTATTGATTGATTTATTTTAAAATATGG
ATTGATTTATTTTTAAAATATAGATTG
Found at i:1253281 original size:32 final size:32
Alignment explanation
Indices: 1253235--1253428 Score: 212
Period size: 32 Copynumber: 6.7 Consensus size: 32
1253225 TATTGTAGTT
*
1253235 GTATGGATTAATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
1253267 GTATGAATTGATTTATTTT--A-AA---A-TA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
1253292 -TA--GATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
1253321 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
1253344 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
* *
1253375 GTATAGATTGATTTATTTTAAATAATTTATTT
1 GTATGGATTGATTTATTTTAAATAATTTATTA
1253407 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
1253429 ATATGGATTG
Statistics
Matches: 136, Mismatches: 6, Indels: 40
0.75 0.03 0.22
Matches are distributed among these distances:
22 27 0.20
23 4 0.03
24 3 0.02
25 5 0.04
26 4 0.03
28 4 0.03
29 5 0.04
30 3 0.02
31 4 0.03
32 77 0.57
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:1253298 original size:22 final size:22
Alignment explanation
Indices: 1253273--1253364 Score: 76
Period size: 22 Copynumber: 3.7 Consensus size: 22
1253263 ATTAGTATGA
1253273 ATTGATTTATTTTAAAATATAG
1 ATTGATTTATTTTAAAATATAG
1253295 ATTGATTTATTTTAAATAATTTATTAG
1 ATTGATTTATTTT-AA-AA--TA-TAG
* *
1253322 TATGGATTGATTTATTTTAAAATATGG
1 -ATTGA-T---TTATTTTAAAATATAG
1253349 ATTGATTTATTTTAAA
1 ATTGATTTATTTTAAA
1253365 TAATTTATTA
Statistics
Matches: 57, Mismatches: 3, Indels: 20
0.71 0.04 0.25
Matches are distributed among these distances:
22 23 0.40
23 2 0.04
24 2 0.04
25 1 0.02
26 6 0.11
27 5 0.09
28 6 0.11
29 1 0.02
30 2 0.04
31 2 0.04
32 7 0.12
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (22 bp):
ATTGATTTATTTTAAAATATAG
Found at i:1253372 original size:14 final size:14
Alignment explanation
Indices: 1253353--1253406 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
1253343 ATATGGATTG
1253353 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
1253367 ATTTATTAGTATAGATTG
1 ATTTATT--T-TA-AATA
1253385 ATTTATTTTAAATA
1 ATTTATTTTAAATA
1253399 ATTTATTT
1 ATTTATTT
1253407 GTATGGATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 17 0.53
15 2 0.06
16 2 0.06
17 2 0.06
18 9 0.28
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:1253499 original size:80 final size:80
Alignment explanation
Indices: 1253294--1253605 Score: 500
Period size: 80 Copynumber: 3.8 Consensus size: 80
1253284 TTAAAATATA
*
1253294 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTA-
* *
1253359 TTTAAATAATTTA-TTAGTATA
65 -TT--AT--TGTAGTT-GTATG
* *
1253380 GATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTAT
1253445 TATTGTAGTTGTATG
66 TATTGTAGTTGTATG
1253460 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTAT
1253525 TATTGTAGTTGTATG
66 TATTGTAGTTGTATG
*
1253540 AATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTAT
1253605 T
66 T
1253606 TTAAATAATT
Statistics
Matches: 219, Mismatches: 6, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
80 150 0.68
81 2 0.01
82 2 0.01
84 2 0.01
86 63 0.29
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (80 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTAT
TATTGTAGTTGTATG
Found at i:1253670 original size:30 final size:30
Alignment explanation
Indices: 1253634--1253690 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
1253624 TAGTTGTATG
* *
1253634 AATTATTTAAATTTCAGTATTGTAAAATAA
1 AATTATTTAAATCTCAGTATTGCAAAATAA
1253664 AATTATTTAAATCTCAGTATTGCAAAA
1 AATTATTTAAATCTCAGTATTGCAAAA
1253691 CTCTTTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.40
Consensus pattern (30 bp):
AATTATTTAAATCTCAGTATTGCAAAATAA
Found at i:1254756 original size:17 final size:18
Alignment explanation
Indices: 1254736--1254774 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
1254726 TAATAGTGAG
1254736 TTATATA-AAATATATTT
1 TTATATATAAATATATTT
*
1254753 TTAT-TATAATTATATTT
1 TTATATATAAATATATTT
1254770 TTATA
1 TTATA
1254775 GTTTAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATATATAAATATATTT
Found at i:1260605 original size:24 final size:24
Alignment explanation
Indices: 1260573--1260620 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
1260563 AACCATAAGG
*
1260573 AACATGCCATAAGAGCAGAGAAAA
1 AACATGCCACAAGAGCAGAGAAAA
1260597 AACATGCCACAAGAGCAGAGAAAA
1 AACATGCCACAAGAGCAGAGAAAA
1260621 GCACGACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.19, G:0.21, T:0.06
Consensus pattern (24 bp):
AACATGCCACAAGAGCAGAGAAAA
Found at i:1261836 original size:36 final size:38
Alignment explanation
Indices: 1261789--1262142 Score: 108
Period size: 35 Copynumber: 9.8 Consensus size: 38
1261779 ATAATTTTTG
*
1261789 AAAATGTTTTTA-AAAAATATA-ATATATAGTTTTCAA
1 AAAATATTTTTAGAAAAATATATATATATAGTTTTCAA
* * *
1261825 AAAATATTTTTAGAAATATATATTTATATAGTTTTTTAA
1 AAAATATTTTTAGAAAAATATATATATATAG-TTTTCAA
* * * * *
1261864 AACATTTTTTTTGAAAATTTATGTACAATATATAAGTTTT---
1 AAAATATTTTTAGAAAA---ATATA-TATATAT-AGTTTTCAA
* *
1261904 AAAACA-TTTT-GAAAATTATATAGTATATAGTTTT---
1 AAAATATTTTTAGAAAAATATATA-TATATAGTTTTCAA
* *
1261938 GAAATCA-TTTT-G-AAAATATA-ATATATAGTTTTTTAA
1 AAAAT-ATTTTTAGAAAAATATATATATATAG-TTTTCAA
* * * *
1261974 AATAACATTTTTTTGAAAATTTATATAATATATAG--TTAAA
1 AA-AATA-TTTTTAGAAAA-ATATAT-ATATATAGTTTTCAA
* * * *
1262014 AAAACA-TTTTGGAAAACT-TATATA-ATA-TTTT--T
1 AAAATATTTTTAGAAAAATATATATATATAGTTTTCAA
*
1262046 AAAATCATTTTT-GAAAACTATATGATATATAGTTTT--A
1 AAAAT-ATTTTTAGAAAAATATAT-ATATATAGTTTTCAA
**
1262083 AAAACGTTTTT----AAATATA-ATATATAG-TTT-AA
1 AAAATATTTTTAGAAAAATATATATATATAGTTTTCAA
* *
1262114 AAAATATTTTTTGAAACATATAT-TATATA
1 AAAATATTTTTAGAAAAATATATATATATA
1262143 ATCTATATTA
Statistics
Matches: 247, Mismatches: 35, Indels: 73
0.70 0.10 0.21
Matches are distributed among these distances:
30 3 0.01
31 18 0.07
32 11 0.04
33 22 0.09
34 29 0.12
35 32 0.13
36 22 0.09
37 27 0.11
38 16 0.06
39 28 0.11
40 12 0.05
41 4 0.02
42 4 0.02
43 17 0.07
44 2 0.01
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (38 bp):
AAAATATTTTTAGAAAAATATATATATATAGTTTTCAA
Found at i:1261873 original size:38 final size:36
Alignment explanation
Indices: 1261789--1261859 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
1261779 ATAATTTTTG
*
1261789 AAAATGTTTTTAAAAAATATAATATATAGTTTTCAA
1 AAAATATTTTTAAAAAATATAATATATAGTTTTCAA
* *
1261825 AAAATATTTTTAGAAATATATATTTATATAGTTTT
1 AAAATATTTTTA-AAAAATATA-ATATATAGTTTT
1261860 TTAAAACATT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
36 11 0.37
37 8 0.27
38 11 0.37
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.46
Consensus pattern (36 bp):
AAAATATTTTTAAAAAATATAATATATAGTTTTCAA
Found at i:1261947 original size:35 final size:34
Alignment explanation
Indices: 1261891--1262116 Score: 175
Period size: 34 Copynumber: 6.5 Consensus size: 34
1261881 TTTATGTACA
1261891 ATATATA-AGTTTTAAAA-CATTTTGAAAATTAT
1 ATATATATAGTTTTAAAATCATTTTGAAAATTAT
*
1261923 ATAGTATATAGTTTTGAAATCATTTTGAAAA-TAT
1 ATA-TATATAGTTTTAAAATCATTTTGAAAATTAT
1261957 A-ATATATAGTTTTTTAAAATAACATTTTTTTGAAAATTTAT
1 ATATATATAG--TTTTAAAAT--CA---TTTTGAAAA-TTAT
** *
1261998 ATAATATATAGTTAAAAAAACATTTTGGAAAACTTAT
1 AT-ATATATAGTTTTAAAATCATTTT-GAAAA-TTAT
*
1262035 ATA-ATAT--TTTTAAAATCATTTTTGAAAACTAT
1 ATATATATAGTTTTAAAATCA-TTTTGAAAATTAT
* * *
1262067 ATGATATATAGTTTTAAAAACGTTTT-TAAA-TAT
1 AT-ATATATAGTTTTAAAATCATTTTGAAAATTAT
*
1262100 A-ATATATAGTTTAAAAA
1 ATATATATAGTTTTAAAA
1262117 ATATTTTTTG
Statistics
Matches: 160, Mismatches: 14, Indels: 41
0.74 0.07 0.19
Matches are distributed among these distances:
31 15 0.09
32 15 0.09
33 23 0.14
34 32 0.20
35 19 0.12
36 16 0.10
37 11 0.07
39 11 0.07
41 10 0.06
43 8 0.05
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.44
Consensus pattern (34 bp):
ATATATATAGTTTTAAAATCATTTTGAAAATTAT
Found at i:1262082 original size:110 final size:109
Alignment explanation
Indices: 1261825--1262086 Score: 288
Period size: 110 Copynumber: 2.4 Consensus size: 109
1261815 TAGTTTTCAA
* **
1261825 AAAAT-ATTTTTAGAAATATATATTTATATAGTTTTTTAAAACATTTTTTTTGAAAATTTATGTA
1 AAAATCATTTTT-GAAA-ATATATATATATAGTTTTAAAAAACATTTTTTTTGAAAATTTA-GTA
**
1261889 CAATATATAAGTTTTAAAACATTTTGAAAATTATATAGTATATAGTTTT
63 CAATATATAAGTTAAAAAACATTTTGAAAATTATATAG-ATATA-TTTT
*
1261938 GAAATCA-TTTTGAAAATATA-ATATATAGTTTTTTAAAATAACA-TTTTTTTGAAAATTTA-TA
1 AAAATCATTTTTGAAAATATATATATATAG--TTTTAAAA-AACATTTTTTTTGAAAATTTAGTA
*
1261999 TAATATAT-AGTTAAAAAAACATTTTGGAAAACTTATATA-ATAT-TTTT
63 CAATATATAAGTT-AAAAAACATTTT-GAAAA-TTATATAGATATATTTT
1262046 AAAATCATTTTTGAAAACTATATGATATATAGTTTTAAAAA
1 AAAATCATTTTTGAAAA-TATAT-ATATATAGTTTTAAAAA
1262087 CGTTTTTAAA
Statistics
Matches: 130, Mismatches: 8, Indels: 26
0.79 0.05 0.16
Matches are distributed among these distances:
108 10 0.08
109 14 0.11
110 42 0.32
111 10 0.08
112 41 0.32
113 12 0.09
114 1 0.01
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.45
Consensus pattern (109 bp):
AAAATCATTTTTGAAAATATATATATATAGTTTTAAAAAACATTTTTTTTGAAAATTTAGTACAA
TATATAAGTTAAAAAACATTTTGAAAATTATATAGATATATTTT
Found at i:1262124 original size:31 final size:31
Alignment explanation
Indices: 1261996--1262124 Score: 98
Period size: 31 Copynumber: 3.9 Consensus size: 31
1261986 TTGAAAATTT
* *
1261996 ATATAATATATAGTTAAAAAAACATTTTGGAA
1 ATATAATATATAGTTTAAAAAACATTTT-TAA
* * * *
1262028 A-ACTTATATAATATTTTTAAAATCATTTTTGAAA
1 ATA-TAATAT-ATAGTTTAAAAAACATTTTT--AA
* *
1262062 ACTATATGATATATAGTTTTAAAAACGTTTTTAA
1 A-TATA--ATATATAGTTTAAAAAACATTTTTAA
*
1262096 ATATAATATATAGTTTAAAAAATATTTTT
1 ATATAATATATAGTTTAAAAAACATTTTT
1262125 TGAAACATAT
Statistics
Matches: 76, Mismatches: 13, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
31 22 0.29
32 6 0.08
33 19 0.25
34 6 0.08
35 1 0.01
36 18 0.24
37 4 0.05
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (31 bp):
ATATAATATATAGTTTAAAAAACATTTTTAA
Found at i:1263708 original size:4 final size:4
Alignment explanation
Indices: 1263699--1263738 Score: 55
Period size: 4 Copynumber: 10.0 Consensus size: 4
1263689 ATAATTGTTT
*
1263699 TTTA TTTA TTTA TTT- TTTC TCTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA
1263739 ATTTTAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
3 3 0.09
4 27 0.82
5 3 0.09
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:1263831 original size:20 final size:20
Alignment explanation
Indices: 1263796--1263845 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1263786 TTCCTTTGAT
*
1263796 TTATTTTCTTTATATTAC-TA
1 TTATTTTATTTATATT-CTTA
* *
1263816 TTATTTTATTTCTATTCTTT
1 TTATTTTATTTATATTCTTA
1263836 TTATTTTATT
1 TTATTTTATT
1263846 GTTTATTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.72
Consensus pattern (20 bp):
TTATTTTATTTATATTCTTA
Found at i:1269427 original size:165 final size:164
Alignment explanation
Indices: 1269102--1270143 Score: 1029
Period size: 165 Copynumber: 6.3 Consensus size: 164
1269092 CTATTTGCAT
* * *
1269102 CATAGCTTAAGTCGAGAAGGGTTATCTG---CCAAAGACCTTCGAGTTCGATTACACTCAGCTTC
1 CATAACTTAAGTCGAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTC
* * * * * * * * *
1269164 GAGGGAATATCATTTACAACATTA-CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCG
66 CAAGGCACATCATTTGCAGCA-TAGCTTAAGTCGAGAAGGGTTATC--TG-CC-AAAGACCTTCG
* * * * * * *
1269228 AGTTTGACTACGCTCAGCTCCAAGGCATATCATTTGCAG
126 AGTTCGATTACACTCAGCTCGAGGGCACATCATTTACAG
* * *
1269267 CATAACTTTAGTCGAGAAGAGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-T
1 CATAACTTAAGTCGAGAAGGGTTATCTG-TAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTT
* * **
1269331 CAAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTT
65 CCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTT
* *
1269396 CGATTATACTCAGCTTCGAGGGCACATCATTTGCAG
130 CGATTACACTCAGC-TCGAGGGCACATCATTTACAG
* *
1269432 CATAACTTAAGTCGAGAAGGGTTATCTGCTAAACAAAGACCTTCGAGTTTGACTACGCTCAGC-T
1 CATAACTTAAGTCGAGAAGGGTTATCTG-TAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTT
* * * * * *
1269496 CCAAGACACATCATTTGTAGCATAGCTTAAATCGAGAAGGGTTATCTACCAATGACCCTCGAGTT
65 CCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTT
* *
1269561 CGATTACACTCAGCGTCGAGGACACATCATTTACAA
130 CGATTACACTCAGC-TCGAGGGCACATCATTTACAG
* * * * * *
1269597 CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACCTTTGAGTTCGACTACGTTCAGC-TC
1 CATAACTTAAGTCGAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTC
* *
1269661 CAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTC
66 CAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTC
* *
1269726 GATTACACTCAGCTTTGAGGGCATATCATTTACAG
131 GATTACACTCAGC-TCGAGGGCACATCATTTACAG
* * * *
1269761 CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTT
1 CATAACTTAAGTCGAGAAGGGTTATCTGTAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTT
* * * * * *
1269826 -CAAGGCATATCATTTACAGCATAACTTAAGTCGAGAATGATTATTTGCCAACCAAAGACCTTCG
65 CCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG----CCAAAGACCTTCG
* * * * *
1269890 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTATAG
126 AGTTCGATTACACTCAGCTCGAGGGCACATCATTTACAG
* * * * *
1269929 CATAGA-TTAAGTCGAGAAAGGCTATCTG-AA--AAAGACCCTCGAGTTCGATTACACTCAGCTT
1 CATA-ACTTAAGTCGAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTT
* * * *
1269990 CGAGGGCACATCATTTGCAGCTTAACTTAAGTCGAGAAGGGTTATCTGCCAACTAAAGACCATT-
65 CCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG-C--C-AAAGACC-TTC
* * * * * **
1270054 GAGTTCGACTACGCTTAGCTCCAAGGCACATCATTTGTAG
125 GAGTTCGATTACACTCAGCTCGAGGGCACATCATTTACAG
* * *
1270094 TATAGCTTAAGTCGAGAAGGGTTATC--T-ACCAAAGA-ATCTCGAGTTCGACT
1 CATAACTTAAGTCGAGAAGGGTTATCTGTAACCAAAGACCT-TCGAGTTCGACT
1270144 TGTAACATCC
Statistics
Matches: 747, Mismatches: 107, Indels: 46
0.83 0.12 0.05
Matches are distributed among these distances:
162 1 0.00
163 1 0.00
164 203 0.27
165 404 0.54
166 5 0.01
167 3 0.00
168 71 0.10
169 59 0.08
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (164 bp):
CATAACTTAAGTCGAGAAGGGTTATCTGTAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTTC
CAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTC
GATTACACTCAGCTCGAGGGCACATCATTTACAG
Found at i:1269533 original size:249 final size:245
Alignment explanation
Indices: 1269094--1270143 Score: 1053
Period size: 249 Copynumber: 4.2 Consensus size: 245
1269084 TAAACAAACT
* *
1269094 ATTTGCATCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACACTCA
* * * * * * * * * * *
1269159 GCTTCGAGGGAATATCATTTACAACATTACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GC-TCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATC--TGAAC-AAAGACC
* * * * *
1269224 TTCGAGTTTGACTACGCTCAGC-TCCAAGGCATATCATTTGCAGCATAACTTTAGTCGAGAAGAG
127 TTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
1269288 TTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCAAAGGCACATC
192 TTATCTG-CAACCAAAGACCTTCGAGTTCGACTACGCTCAGCGTC-AAGGCACATC
* ** * *
1269343 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTATACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACACTCA
* * * *
1269408 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAAACAAAGACC
66 GC-TCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATCTG---AACAAAGACC
* * * * * *
1269473 TTCGAGTTTGACTACGCTCAGC-TCCAAGACACATCATTTGTAGCATAGCTTAAATCGAGAAGGG
127 TTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
* * * * *
1269537 TTATCT---ACCAATGACCCTCGAGTTCGATTACACTCAGCGTCGAGGACACATC
192 TTATCTGCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCGTCAAGG-CACATC
* * * * * * * **
1269589 ATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACCTTTGAGTTCGACTACGT
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATC--TG-CCAAAGACCTTCGAGTTCGACTACAC
* * * *
1269654 TCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCT
63 TCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATCTGAACAAAGACCT
* ** * * * * * *
1269718 TCGAGTTCGATTACACTCAGCTTTGAGGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGT
128 TCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
** * *
1269783 TATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTTCAAGGCATATC
193 TATCTGCAACC-AAAGACCTTCGAGTTCGACTACGCTCAGCGTCAAGGCACATC
* * * * * *
1269837 ATTTACAGCATAACTTAAGTCGAGAATGATTATTTGCCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG----CCAAAGACCTTCGAGTTCGACTACA
* *
1269902 CTCAGCTCCAAGGCACATCATTTATAGCATAGA-TTAAGTCGAGAAAGGCTATCTGAA-AAAGAC
62 CTCAGCTCCAAGGCACATCATTTACAGCATA-ACTTAAGTCGAGAAGGGCTATCTGAACAAAGAC
* * * * *
1269965 CCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCTTAACTTAAGTCGAGAAGG
126 CTTCGAGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGG
* *
1270030 GTTATCTGCCAACTAAAGACCATT-GAGTTCGACTACGCTTAGC-TCCAAGGCACATC
191 GTTATCTG-CAACCAAAGACC-TTCGAGTTCGACTACGCTCAGCGT-CAAGGCACATC
* * * *
1270086 ATTTGTAGTATAGCTTAAGTCGAGAAGGGTTATCTACCAAAGA-ATCTCGAGTTCGACT
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCT-TCGAGTTCGACT
1270144 TGTAACATCC
Statistics
Matches: 674, Mismatches: 105, Indels: 48
0.81 0.13 0.06
Matches are distributed among these distances:
244 28 0.04
245 86 0.13
246 37 0.05
247 2 0.00
248 82 0.12
249 433 0.64
250 6 0.01
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.26
Consensus pattern (245 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACACTCA
GCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGCTATCTGAACAAAGACCTTCG
AGTTCGACTACACTCAGCTTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT
CTGCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCGTCAAGGCACATC
Found at i:1269693 original size:329 final size:328
Alignment explanation
Indices: 1269094--1270120 Score: 986
Period size: 329 Copynumber: 3.1 Consensus size: 328
1269084 TAAACAAACT
* * * * *
1269094 ATTTGCATCATAGCTTAAGTCGAGAAGGGTTATCTG----CCAAAGACCTTCGAGTTCGATTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTAAACAAAAGACCTTCGAGTTCGACTACG
* * * * * * ** * * ***
1269155 CTCAGCTTCGAGGGA-ATATCATTTACAACATTACTCAAGGCTAGAAGGGTTATCTGTGACCAAA
66 CTCAGC-TCCA-AGACACATCATTTACAGCATAACTTAAATCGAGAAGGATTAT-TCCAACC-AA
* * * * * * ** *
1269219 AGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATA-ACTTTAGTCGAG
127 AGACCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAACATAGA-TCAAGGCGAG
*
1269283 -AAGAGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTT
191 AAAG-GCTATCTG---ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTT
* ** *
1269347 GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTATACTCAGCTT
252 GCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCATCGAGTTCGATTACACTCAGCTT
1269412 CGAGGGCACATC
317 CGAGGGCACATC
*
1269424 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAAAC-AAAGACCTTCGAGTTTGACTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TAAACAAAAGACCTTCGAGTTCGACTAC
** * * * *
1269488 GCTCAGCTCCAAGACACATCATTTGTAGCATAGCTTAAATCGAGAAGGGTTA-T-CTACCAATGA
65 GCTCAGCTCCAAGACACATCATTTACAGCATAACTTAAATCGAGAAGGATTATTCCAACCAAAGA
* * *
1269551 CCCTCGAGTTCGATTACACTCAGCGT-CGAGGACACATCATTTACAACATA-ACTCAAGGCTAGA
130 CCCTCGAGTTCGACTACACTCAGC-TCCAAGG-CACATCATTTACAACATAGA-TCAAGGCGAGA
* * * * *
1269614 AGGGTTATCTGTGACCAAAGACCTTTGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGCA
192 AAGGCTATC--TGACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCA
* *
1269679 GTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTTTGA
255 GTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCATCGAGTTCGATTACACTCAGCTTCGA
*
1269744 GGGCATATC
320 GGGCACATC
* * * * * *
1269753 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTAAACAAAAGACCTTCGAGTTCGACTACG
* * * * *
1269818 CTCAGCTTCAAGGCATATCATTTACAGCATAACTTAAGTCGAGAATGATTATTTGCCAACCAAAG
66 CTCAGCTCCAAGACACATCATTTACAGCATAACTTAAATCGAGAAGGATTA-TT-CCAACCAAAG
* * * * * *
1269883 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTATAGCATAGATTAAGTCGAGAAA
129 ACCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAACATAGATCAAGGCGAGAAA
* * * * * *
1269948 GGCTATCTGA-AAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCT
194 GGCTATCTGACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCAAAGGCACATCATTTGCAG-T
* * * * * *
1270012 -TAACTTAAGTCGAGAAGGGTTATCTGCCAACTAAAGACCATTGAGTTCGACTACGCTTAGC-TC
257 ATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCATCGAGTTCGATTACACTCAGCTTC
* *
1270075 CAAGGCACATC
318 GAGGGCACATC
* * *
1270086 ATTTGTAGTATAGCTTAAGTCGAGAAGGGTTATCT
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT
1270121 ACCAAAGAAT
Statistics
Matches: 576, Mismatches: 97, Indels: 45
0.80 0.14 0.06
Matches are distributed among these distances:
328 3 0.01
329 265 0.46
330 113 0.20
331 6 0.01
332 36 0.06
333 102 0.18
334 50 0.09
335 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (328 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTAAACAAAAGACCTTCGAGTTCGACTACG
CTCAGCTCCAAGACACATCATTTACAGCATAACTTAAATCGAGAAGGATTATTCCAACCAAAGAC
CCTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAACATAGATCAAGGCGAGAAAGG
CTATCTGACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTGCAGTATAG
CTTAAGTCGAGAAGGGCTATCTGCCAAAGACCATCGAGTTCGATTACACTCAGCTTCGAGGGCAC
ATC
Found at i:1271086 original size:64 final size:62
Alignment explanation
Indices: 1270932--1271092 Score: 178
Period size: 64 Copynumber: 2.5 Consensus size: 62
1270922 ATTGTTTTAG
* * * *
1270932 TGTGTATCGATGCACAGGAAGTGCATCGATGCACCTATTAAAATGGAAACATCGAATGCAATT
1 TGTGCATCGATGCACAGG-AGTGCATCGATGCACCCATTAAAATGAAAACATCGAAGGCAATT
* * * **
1270995 GGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCCTTAAAATGAAAACATCGAAGGTGATT
1 TGTGCATCGATGCA-CAGGAGTGCATCGATGCA-CCCATTAAAATGAAAACATCGAAGGCAATT
* * *
1271059 TGTGCATCGATGCACGGGTACTTCATCGATGCAC
1 TGTGCATCGATGCACAGG-AGTGCATCGATGCAC
1271093 GGGTACTTCA
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
63 29 0.36
64 52 0.64
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (62 bp):
TGTGCATCGATGCACAGGAGTGCATCGATGCACCCATTAAAATGAAAACATCGAAGGCAATT
Found at i:1271087 original size:19 final size:19
Alignment explanation
Indices: 1271063--1271111 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
1271053 GTGATTTGTG
1271063 CATCGATGCACGGGTACTT
1 CATCGATGCACGGGTACTT
1271082 CATCGATGCACGGGTACTT
1 CATCGATGCACGGGTACTT
1271101 CATCGATGCAC
1 CATCGATGCAC
1271112 ATGCTAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.24
Consensus pattern (19 bp):
CATCGATGCACGGGTACTT
Found at i:1271128 original size:24 final size:20
Alignment explanation
Indices: 1271119--1271156 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1271109 CACATGCTAA
1271119 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
*
1271139 TGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
1271157 TCAAGAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:1272005 original size:8 final size:8
Alignment explanation
Indices: 1271994--1272031 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
1271984 TAAATGATGA
1271994 CATGTATG
1 CATGTATG
1272002 CATGTATG
1 CATGTATG
1272010 CATGTATG
1 CATGTATG
1272018 CATGTATG
1 CATGTATG
*
1272026 TATGTA
1 CATGTA
1272032 ATGGTTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (8 bp):
CATGTATG
Found at i:1272324 original size:30 final size:30
Alignment explanation
Indices: 1272284--1272416 Score: 230
Period size: 30 Copynumber: 4.4 Consensus size: 30
1272274 GGTTCTTCGG
*
1272284 GACCTATGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
* *
1272314 GACATCTGGATAGTTACCGAGAATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
1272344 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
1272374 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
1272404 AACCTCTGGATAG
1 GACCTCTGGATAG
1272417 GTCTTTCGGA
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 97 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:1273789 original size:35 final size:34
Alignment explanation
Indices: 1273714--1274027 Score: 107
Period size: 37 Copynumber: 8.8 Consensus size: 34
1273704 TTTGAAAATG
*** *
1273714 TTTTTGAAA-ATATAATATATAGTATTCAAAAAATAT
1 TTTTTGAAATATATAATATATAGT-TT-TTTAAA-AC
*
1273750 TTTTTGAAATATATATTATATAGTTTTTTAAAAC
1 TTTTTGAAATATATAATATATAGTTTTTTAAAAC
*
1273784 GTTTTTTGAAAACCTATGTACAATATATAAG--TTTTAAAAC
1 --TTTTTG-AAA--TA--TATAATATAT-AGTTTTTTAAAAC
* * * *
1273824 ATTTTGAAAATTATATAGTATATAG-TTTTGAAATC
1 TTTTTG-AAA-TATATAATATATAGTTTTTTAAAAC
*
1273859 ATTTTGAAA-ATATAATATATAGTTTTTTAAAAAAAAC
1 TTTTTGAAATATATAATATATAGTTTTTT----AAAAC
***
1273896 ATTTTTTGAAAATTTATATAATATATAGTTTAAAAAAAC
1 --TTTTTG-AAA--TATATAATATATAGTTTTTTAAAAC
*
1273935 ATTTTGGAAA-ACT-T-ATATA-A-TATTTTTAAAATC
1 -TTTTTGAAATA-TATAATATATAGT-TTTTTAAAA-C
* *
1273968 ATTTTTGAAAACTATATGATATATAG-TTTTAAAAAC
1 -TTTTTG-AAA-TATATAATATATAGTTTTTTAAAAC
1274004 GTTTTT--AAT-TATAATATATAGTTT
1 -TTTTTGAAATATATAATATATAGTTT
1274028 AAAAATATTT
Statistics
Matches: 217, Mismatches: 29, Indels: 68
0.69 0.09 0.22
Matches are distributed among these distances:
31 12 0.06
32 22 0.10
33 18 0.08
34 11 0.05
35 26 0.12
36 25 0.12
37 38 0.18
38 15 0.07
39 12 0.06
40 12 0.06
41 8 0.04
42 2 0.01
43 16 0.07
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (34 bp):
TTTTTGAAATATATAATATATAGTTTTTTAAAAC
Found at i:1273789 original size:36 final size:35
Alignment explanation
Indices: 1273697--1274059 Score: 116
Period size: 36 Copynumber: 10.1 Consensus size: 35
1273687 AGTAATATAG
* *
1273697 TATAATTTTTGAAAATG-TTTTTGAAAATATAATA
1 TATAGTTTTTAAAAATGTTTTTTGAAAATATAATA
** * *
1273731 TATAGTATTCAAAAAATATTTTTTGAAATATATATTA
1 TATAGT-TTTTAAAAATGTTTTTTGAAA-ATATAATA
* *
1273768 TATAGTTTTTTAAAACGTTTTTTGAAAACCTATGTACAATA
1 TATAGTTTTTAAAAATGTTTTTTGAAAA--TA--T--AATA
1273809 TATAAG-TTTTAAAACA----TTTTGAAAATTATATAGTA
1 TAT-AGTTTTTAAAA-ATGTTTTTTGAAAA-TATA-A-TA
* **
1273844 TATAG-TTTT-GAAAT-CATTTTGAAAATATAATA
1 TATAGTTTTTAAAAATGTTTTTTGAAAATATAATA
**
1273876 TATAGTTTTTTAAAAAAAACATTTTTTGAAAATTTATATAATA
1 TATAG-TTTTT---AAAAATGTTTTTTG-AAA---ATATAATA
* *** *
1273919 TATAG-TTTAAAAAAACATTTTGGAAAACT-T-ATA
1 TATAGTTTTTAAAAATGTTTTTTGAAAA-TATAATA
**
1273952 TAATA-TTTTT-AAAATCATTTTTGAAAACTATATGATA
1 T-ATAGTTTTTAAAAATGTTTTTTGAAAA-TATA--ATA
* *
1273989 TATAG-TTTTAAAAACG-TTTTT--AATTATAATA
1 TATAGTTTTTAAAAATGTTTTTTGAAAATATAATA
* * *
1274020 TATAG-TTTAAAAATATTTTTTTTGAAACATATATTA
1 TATAGTTTTTAAAA-ATGTTTTTTGAAA-ATATAATA
1274056 TATA
1 TATA
1274060 ATCTATATTA
Statistics
Matches: 253, Mismatches: 35, Indels: 80
0.69 0.10 0.22
Matches are distributed among these distances:
31 15 0.06
32 9 0.04
33 34 0.13
34 31 0.12
35 26 0.10
36 47 0.19
37 28 0.11
38 22 0.09
39 6 0.02
40 3 0.01
41 16 0.06
42 3 0.01
43 13 0.05
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (35 bp):
TATAGTTTTTAAAAATGTTTTTTGAAAATATAATA
Found at i:1273880 original size:108 final size:105
Alignment explanation
Indices: 1273750--1274009 Score: 269
Period size: 108 Copynumber: 2.4 Consensus size: 105
1273740 CAAAAAATAT
* *
1273750 TTTTTGAAATATATATTATATAGTTTTTTAAAACGTTTTTTGAAAACCTATGTACAATATATAAG
1 TTTTTGAAA-ATATAATATATAGTTTTTTAAAACGTTTTTTGAAAA--TATATACAATATAT-AG
* *
1273815 TTT-TAAAACATTTT-GAAAA-TTATATAGTATATAGTTTTGAAATCA
62 TTTAAAAAACATTTTGGAAAACTTATATA--ATAT--TTTTAAAATCA
* * *
1273860 -TTTTGAAAATATAATATATAGTTTTTTAAAAAAAACATTTTTTGAAAATTTATATAATATATAG
1 TTTTTGAAAATATAATATATAGTTTTTT----AAAACGTTTTTTGAAAATATATACAATATATAG
1273924 TTTAAAAAAACATTTTGGAAAACTTATATAATATTTTTAAAATCA
62 TTT-AAAAAACATTTTGGAAAACTTATATAATATTTTTAAAATCA
*
1273969 TTTTTGAAAACTATATGATATATAG-TTTTAAAAACGTTTTT
1 TTTTTGAAAA-TATA--ATATATAGTTTTTTAAAACGTTTTT
1274010 AATTATAATA
Statistics
Matches: 129, Mismatches: 9, Indels: 26
0.79 0.05 0.16
Matches are distributed among these distances:
108 28 0.22
109 23 0.18
110 20 0.16
111 18 0.14
112 25 0.19
113 15 0.12
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.45
Consensus pattern (105 bp):
TTTTTGAAAATATAATATATAGTTTTTTAAAACGTTTTTTGAAAATATATACAATATATAGTTTA
AAAAACATTTTGGAAAACTTATATAATATTTTTAAAATCA
Found at i:1273903 original size:39 final size:39
Alignment explanation
Indices: 1273723--1274053 Score: 155
Period size: 35 Copynumber: 9.1 Consensus size: 39
1273713 GTTTTTGAAA
* *
1273723 ATATAATATATAGTATTCAAAAAATATTTTTTG-AAATAT
1 ATATAATATATAGT-TTAAAAAAACATTTTTTGAAAATAT
*** *
1273762 ATAT--TATATAGTTTTTTAAAACGTTTTTTGAAAACCTAT
1 ATATAATATATAGTTTAAAAAAACATTTTTTGAAAA--TAT
* * *
1273801 GTACAATATATAAGTTT--TAAAACA--TTTTGAAAAT-T
1 ATATAATATAT-AGTTTAAAAAAACATTTTTTGAAAATAT
* ** *
1273836 ATATAGTATATAGTTT-TGAAATCA--TTTTGAAAATAT
1 ATATAATATATAGTTTAAAAAAACATTTTTTGAAAATAT
** *
1273872 A-AT-ATATAGTTTTTTAAAAAAAACATTTTTTGAAAATTT
1 ATATAATATA-TAGTTT-AAAAAAACATTTTTTGAAAATAT
*
1273911 ATATAATATATAGTTTAAAAAAACA-TTTTGGAAAACT-T
1 ATATAATATATAGTTTAAAAAAACATTTTTTGAAAA-TAT
* *
1273949 ATATAATAT-T--TTT--AAAATCA-TTTTTGAAAA-CT
1 ATATAATATATAGTTTAAAAAAACATTTTTTGAAAATAT
* * *
1273981 ATATGATATATAGTTT-TAAAAAC-GTTTTT----A-AT
1 ATATAATATATAGTTTAAAAAAACATTTTTTGAAAATAT
* **
1274013 -TATAATATATAGTTTAAAAATATTTTTTTTGAAACATAT
1 ATATAATATATAGTTTAAAAAAACATTTTTTGAAA-ATAT
1274052 AT
1 AT
1274054 TATATAATCT
Statistics
Matches: 228, Mismatches: 33, Indels: 61
0.71 0.10 0.19
Matches are distributed among these distances:
31 14 0.06
32 15 0.07
33 21 0.09
34 9 0.04
35 36 0.16
36 26 0.11
37 17 0.07
38 29 0.13
39 33 0.14
40 13 0.06
41 10 0.04
42 5 0.02
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (39 bp):
ATATAATATATAGTTTAAAAAAACATTTTTTGAAAATAT
Done.