Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_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: 5609167
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 23
Found at i:3022483 original size:24 final size:25
Alignment explanation
Indices: 3022456--3022503 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
3022446 ATTTTACATA
3022456 TGAGTA-T-GAAATTTATTTTATTCC
1 TGAGTATTAGAAATTT-TTTTATTCC
3022480 TGAGTATTAGGAAATTTTTTTATT
1 TGAGTATTA-GAAATTTTTTTATT
3022504 TTATAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 6 0.29
25 1 0.05
26 7 0.33
27 7 0.33
ACGTcount: A:0.29, C:0.04, G:0.15, T:0.52
Consensus pattern (25 bp):
TGAGTATTAGAAATTTTTTTATTCC
Found at i:3032780 original size:13 final size:13
Alignment explanation
Indices: 3032762--3032809 Score: 71
Period size: 13 Copynumber: 3.7 Consensus size: 13
3032752 CAGTTTCTAA
3032762 TTTTCTGCACTGC
1 TTTTCTGCACTGC
3032775 TTTTCTGCGA-TGC
1 TTTTCTGC-ACTGC
*
3032788 TTTTCTGCGCTGC
1 TTTTCTGCACTGC
3032801 TTTTCTGCA
1 TTTTCTGCA
3032810 ATGTTCGAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 30 0.97
14 1 0.03
ACGTcount: A:0.06, C:0.27, G:0.19, T:0.48
Consensus pattern (13 bp):
TTTTCTGCACTGC
Found at i:3040822 original size:26 final size:26
Alignment explanation
Indices: 3040792--3040855 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
3040782 ATTGCTAAAT
3040792 AAAATTGTCGATCCGTACGGAATATC
1 AAAATTGTCGATCCGTACGGAATATC
*
3040818 AAAATTGTCGATCCGTAGGGAATATC
1 AAAATTGTCGATCCGTACGGAATATC
3040844 AAAATTGTCGAT
1 AAAATTGTCGAT
3040856 GAGTTGATCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (26 bp):
AAAATTGTCGATCCGTACGGAATATC
Found at i:3041830 original size:23 final size:23
Alignment explanation
Indices: 3041804--3041849 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
3041794 TATTGCTAAC
* *
3041804 TGGACTTTATAGAAGTTGCTGAT
1 TGGACCTTATAGAAGCTGCTGAT
*
3041827 TGGACCTTCTAGAAGCTGCTGAT
1 TGGACCTTATAGAAGCTGCTGAT
3041850 GAACTACCGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (23 bp):
TGGACCTTATAGAAGCTGCTGAT
Found at i:3050601 original size:14 final size:16
Alignment explanation
Indices: 3050566--3050596 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3050556 TCTAGTTAGG
*
3050566 TTTGTACTTTTTTTAA
1 TTTGTACTTTTTATAA
3050582 TTTGTACTTTTTATA
1 TTTGTACTTTTTATA
3050597 TTGTATTGGT
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:0.06, G:0.06, T:0.68
Consensus pattern (16 bp):
TTTGTACTTTTTATAA
Found at i:3050745 original size:101 final size:99
Alignment explanation
Indices: 3050565--3050746 Score: 244
Period size: 101 Copynumber: 1.8 Consensus size: 99
3050555 TTCTAGTTAG
* * * *
3050565 GTTTGTACTTTTTTTAATTTGTACTTTTTATATTGTATTGGTTTTATTGCTTTTTACATTATTAA
1 GTTTGTACTTTTTTTAATTTGTAATTTTTATATTGTATTGCTTTTACTACTTTTTACATTATTAA
3050630 TTTGTTTTTAATTTGTTCCAACATGTCTATATTA
66 TTTGTTTTTAATTTGTTCCAACATGTCTATATTA
*
3050664 GTTTGTACTATTTTTTAATTTGTAATTGTTTATATTGTATTGCTTTGTCCTACTTTTTA-ATT-T
1 GTTTGTACT-TTTTTTAATTTGTAATT-TTTATATTGTATTGCTTT-TACTACTTTTTACATTAT
*
3050727 GT-ATTTGTTTATTTATTTGT
63 -TAATTTGTTT-TTAATTTGT
3050747 ACTGGTTTGT
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
99 9 0.12
100 25 0.35
101 29 0.40
102 9 0.12
ACGTcount: A:0.20, C:0.07, G:0.11, T:0.62
Consensus pattern (99 bp):
GTTTGTACTTTTTTTAATTTGTAATTTTTATATTGTATTGCTTTTACTACTTTTTACATTATTAA
TTTGTTTTTAATTTGTTCCAACATGTCTATATTA
Found at i:3052273 original size:20 final size:20
Alignment explanation
Indices: 3052250--3052292 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
3052240 TGAGTAAATT
3052250 AATGAATACATCATTTGTTG
1 AATGAATACATCATTTGTTG
3052270 AATGAATACATCATTTGTTG
1 AATGAATACATCATTTGTTG
3052290 AAT
1 AAT
3052293 TACTTTTGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (20 bp):
AATGAATACATCATTTGTTG
Found at i:3052451 original size:22 final size:23
Alignment explanation
Indices: 3052395--3052454 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
3052385 GATAATTCCA
* *
3052395 AACAAAATGTCATTAACATACCT
1 AACAAAATATCATTAACATACAT
* * *
3052418 -TCAACATTTCATTAACAT-CAT
1 AACAAAATATCATTAACATACAT
3052439 AACAAAATATCATTAA
1 AACAAAATATCATTAA
3052455 GTAACATTTC
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.30
Consensus pattern (23 bp):
AACAAAATATCATTAACATACAT
Found at i:3054371 original size:75 final size:75
Alignment explanation
Indices: 3054248--3054397 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
3054238 AATACGATGG
3054248 AGTGCGGTAAAGATTGACTTTTTAAATAATTAAAGTTTCTTTGTCTTCGAGCTCCTACATTTCGA
1 AGTGCGGTAAAGATTGACTTTTTAAATAATTAAAGTTTCTTTGTCTTCGAGCTCCTACATTTCGA
3054313 TAATGAAGTT
66 TAATGAAGTT
*
3054323 AGTGCGGTAAAGATTGACTTTTTAAATAATTAAAGTTTCTTTGTCTTCGAGCTCCTACATTTCGG
1 AGTGCGGTAAAGATTGACTTTTTAAATAATTAAAGTTTCTTTGTCTTCGAGCTCCTACATTTCGA
3054388 TAATGAAGTT
66 TAATGAAGTT
3054398 GGAATCGGGA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (75 bp):
AGTGCGGTAAAGATTGACTTTTTAAATAATTAAAGTTTCTTTGTCTTCGAGCTCCTACATTTCGA
TAATGAAGTT
Found at i:3069698 original size:22 final size:20
Alignment explanation
Indices: 3069643--3069699 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 20
3069633 GAAAATATAT
* *
3069643 AAACATATATAAATGAAGAG
1 AAACATATATATAGGAAGAG
*
3069663 AAACTATCTCATATAGGAAGTAG
1 AAAC-ATAT-ATATAGGAAG-AG
3069686 AAACATATAATATA
1 AAACATAT-ATATA
3069700 TGTATATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 4 0.14
21 3 0.10
22 16 0.55
23 6 0.21
ACGTcount: A:0.54, C:0.09, G:0.12, T:0.25
Consensus pattern (20 bp):
AAACATATATATAGGAAGAG
Found at i:3071859 original size:24 final size:24
Alignment explanation
Indices: 3071832--3071878 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
3071822 TTTCCATTGG
3071832 TTTTATAAAAGTT-TTTTTCTTTTC
1 TTTT-TAAAAGTTCTTTTTCTTTTC
* *
3071856 TTTTTTAAAGTTCTTTTTTTTTT
1 TTTTTAAAAGTTCTTTTTCTTTT
3071879 TCAAAGATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTTAAAAGTTCTTTTTCTTTTC
Found at i:3071871 original size:18 final size:19
Alignment explanation
Indices: 3071848--3071884 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
3071838 AAAAGTTTTT
3071848 TTCTTTTCTTTTTT-AAAG
1 TTCTTTTCTTTTTTCAAAG
*
3071866 TTCTTTTTTTTTTTCAAAG
1 TTCTTTTCTTTTTTCAAAG
3071885 ATGCTAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.16, C:0.11, G:0.05, T:0.68
Consensus pattern (19 bp):
TTCTTTTCTTTTTTCAAAG
Found at i:3108006 original size:21 final size:20
Alignment explanation
Indices: 3107977--3108016 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
3107967 GAATCAAGGT
3107977 TTTTATTGAAGCCATGAAATC
1 TTTTATTGAAGCCAT-AAATC
* *
3107998 TTTTGTTGAGGCCATAAAT
1 TTTTATTGAAGCCATAAAT
3108017 TCCTGTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.40
Consensus pattern (20 bp):
TTTTATTGAAGCCATAAATC
Found at i:3112298 original size:21 final size:21
Alignment explanation
Indices: 3112274--3112322 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
3112264 TCATCACATA
3112274 AGCTAAGTATAGACATGCATG
1 AGCTAAGTATAGACATGCATG
* *
3112295 AGCTAAGTATGGATATGCATG
1 AGCTAAGTATAGACATGCATG
*
3112316 AACTAAG
1 AGCTAAG
3112323 GAAATATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (21 bp):
AGCTAAGTATAGACATGCATG
Found at i:3116504 original size:14 final size:16
Alignment explanation
Indices: 3116487--3116518 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3116477 TAAAATATCT
3116487 AAAAT-AAAA-ATCCA
1 AAAATCAAAACATCCA
3116501 AAAATCAAAACATCCA
1 AAAATCAAAACATCCA
3116517 AA
1 AA
3116519 TGCAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 4 0.25
16 7 0.44
ACGTcount: A:0.69, C:0.19, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAATCAAAACATCCA
Found at i:3118324 original size:19 final size:19
Alignment explanation
Indices: 3118254--3118315 Score: 106
Period size: 19 Copynumber: 3.3 Consensus size: 19
3118244 CTTTCCTATG
*
3118254 AGTTTCGAAACTTTTAAAA
1 AGTTTAGAAACTTTTAAAA
3118273 AGTTTAGAAACTTTTAAAA
1 AGTTTAGAAACTTTTAAAA
*
3118292 AGTTTAGAAACTTTTCAAA
1 AGTTTAGAAACTTTTAAAA
3118311 AGTTT
1 AGTTT
3118316 TGATGCTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (19 bp):
AGTTTAGAAACTTTTAAAA
Found at i:3121044 original size:2 final size:2
Alignment explanation
Indices: 3121037--3121065 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3121027 AGGCCCAAAA
3121037 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
3121066 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:3122659 original size:15 final size:13
Alignment explanation
Indices: 3122625--3122677 Score: 52
Period size: 15 Copynumber: 3.7 Consensus size: 13
3122615 ACAACCTTCC
*
3122625 TTTTCTTTTCAATTT
1 TTTTCTTTTC--TTA
3122640 TTTTCTTTTCCTTA
1 TTTTCTTTT-CTTA
3122654 TCTTTCTTTTCTTA
1 T-TTTCTTTTCTTA
3122668 TTCTTCTTTT
1 TT-TTCTTTT
3122678 TCTTTCACCA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
13 1 0.03
14 15 0.44
15 17 0.50
16 1 0.03
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTCTTTTCTTA
Found at i:3122674 original size:14 final size:15
Alignment explanation
Indices: 3122641--3122677 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
3122631 TTTCAATTTT
3122641 TTTCTTTTCCTTATC
1 TTTCTTTTCCTTATC
3122656 TTTCTTTT-CTTAT-
1 TTTCTTTTCCTTATC
3122669 TCTTCTTTT
1 T-TTCTTTT
3122678 TCTTTCACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 12 0.57
15 8 0.38
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTCTTTTCCTTATC
Found at i:3139999 original size:17 final size:17
Alignment explanation
Indices: 3139977--3140015 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
3139967 GAAGTCACTT
3139977 TGTGACCTTGGCTCTAG
1 TGTGACCTTGGCTCTAG
3139994 TGTGACCTTGGCTCTAG
1 TGTGACCTTGGCTCTAG
3140011 TGTGA
1 TGTGA
3140016 ACTTAATGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.13, C:0.21, G:0.31, T:0.36
Consensus pattern (17 bp):
TGTGACCTTGGCTCTAG
Found at i:3142726 original size:53 final size:53
Alignment explanation
Indices: 3142648--3142751 Score: 145
Period size: 53 Copynumber: 2.0 Consensus size: 53
3142638 CTAAGGTTAC
* ** * * * *
3142648 AAAATGGTAATTCACGAATTCATTATGAATACCATGGGTGCATACATAGTGCA
1 AAAATGATAATTCAAAAACTCATTATGAATACCATGGATACACACATAGTGCA
3142701 AAAATGATAATTCAAAAACTCATTATGAATACCATGGATACACACATAGTG
1 AAAATGATAATTCAAAAACTCATTATGAATACCATGGATACACACATAGTG
3142752 TCGAAAGTAC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (53 bp):
AAAATGATAATTCAAAAACTCATTATGAATACCATGGATACACACATAGTGCA
Found at i:3144561 original size:29 final size:30
Alignment explanation
Indices: 3144496--3144569 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
3144486 TTAAAATTAC
*
3144496 CATTTTGGTCCTTAAACTTTTCAAAGTTTA
1 CATTTTGGTCATTAAACTTTTCAAAGTTTA
* * * *
3144526 TAATTTGGTTATTAAAC-TTTCAAATTTTA
1 CATTTTGGTCATTAAACTTTTCAAAGTTTA
3144555 CATTTTGGTCATTAA
1 CATTTTGGTCATTAA
3144570 CCAAATCCAT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
29 23 0.64
30 13 0.36
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (30 bp):
CATTTTGGTCATTAAACTTTTCAAAGTTTA
Found at i:3147573 original size:115 final size:116
Alignment explanation
Indices: 3147189--3148030 Score: 1350
Period size: 116 Copynumber: 7.3 Consensus size: 116
3147179 ATCTCATTTA
* * * *
3147189 AAAACATCATGCACTGGAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTAG-AGGAC
1 AAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCA-TTGTAGGTC
*
3147253 TTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTTG
65 TTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGC-TTTTTG
* ** * *
3147306 AACACATCCTAAACTATAGGTCTTATGGATGGCCCTAAGGTCTTATCATCTTGCACTT-TAGGTC
1 AAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCA-TTGTAGGTC
* *
3147370 TTACAGATGACCAGGAGGCTTTAAATATTAAAAAGCTCCCGAAGGCTTTTTG
65 TTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTG
3147422 AAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCATTGTAGGTCT
1 AAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCATTGTAGGTCT
* *
3147487 TACAGATGACCCGAAAGCTTTAAATATCAAAAA-CTCCCGAAGGCTTTTTG
66 TACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTG
* * **
3147537 AAACCATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTACATCATAGGTCT
1 AAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCATTGTAGGTCT
*
3147602 TACAGATGACCCAGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTG
66 TACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTG
*
3147653 AAAACATCCTGCACTGTAGGTCTTATGGATGGCCCT-AGGTCTTATCATCTTGCACTGTAGGTCT
1 AAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCATTGTAGGTCT
* *
3147717 TACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAGGGATTTTTG
66 TACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTG
* *
3147768 AAAACATCTTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTACATTGTAGGTCT
1 AAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCATTGTAGGTCT
3147833 TACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTG
66 TACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTG
* *
3147884 AAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCAATGTAGGTCT
1 AAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCATTGTAGGTCT
* * * * *
3147949 TACAGATGACCCAGAGGTTTTAAATATCAAAGAGCTCCCAAAGGATTTTTG
66 TACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTG
3148000 AAAACATCCTGCACTGTAGGTCTTATGGATG
1 AAAACATCCTGCACTGTAGGTCTTATGGATG
3148031 TGGGAAATAA
Statistics
Matches: 671, Mismatches: 50, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
115 217 0.32
116 357 0.53
117 97 0.14
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (116 bp):
AAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCATTGTAGGTCT
TACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTG
Found at i:3147637 original size:231 final size:232
Alignment explanation
Indices: 3147189--3148030 Score: 1327
Period size: 231 Copynumber: 3.6 Consensus size: 232
3147179 ATCTCATTTA
* * *
3147189 AAAACATCATGCACTGGAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTAG-AGGAC
1 AAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCA-TTGTAGGTC
* * * * **
3147253 TTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTTGAACACATCCTAA
65 TTACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGG-ATTTTTGAAAACATCCTGC
* * * *
3147318 ACTATAGGTCTTATGGATGGCCCTAAGGTCTTATCATCTTGCA-CTTTAGGTCTTACAGATGA-C
129 ACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTACATC-ATAGGTCTTACAGATGACC
*
3147381 CAGGAGGCTTTAAATATTAAAAAGCTCCCGAAGGCTTTTTG
193 CA-GAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTG
*
3147422 AAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCATTGTAGGTCT
1 AAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCATTGTAGGTCT
* * *
3147487 TACAGATGACCCGAAAGCTTTAAATATCAAAAA-CTCCCGAAGGCTTTTTGAAACCATCCTGCAC
66 TACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGGATTTTTGAAAACATCCTGCAC
3147551 TGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTACATCATAGGTCTTACAGATGACCCAG
131 TGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTACATCATAGGTCTTACAGATGACCCAG
3147616 AGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTG
196 AGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTG
* *
3147653 AAAACATCCTGCACTGTAGGTCTTATGGATGGCCCT-AGGTCTTATCATCTTGCACTGTAGGTCT
1 AAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCATTGTAGGTCT
* * *
3147717 TACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAGGGATTTTTGAAAACATCTTGCAC
66 TACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGGATTTTTGAAAACATCCTGCAC
** *
3147782 TGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTACATTGTAGGTCTTACAGATGACCCGG
131 TGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTACATCATAGGTCTTACAGATGACCCAG
3147847 AGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTG
196 AGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTG
*
3147884 AAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCAATGTAGGTCT
1 AAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCATTGTAGGTCT
* * *
3147949 TACAGATGACCC-AGAGGTTTTAAATATCAAAGAGCTCCCAAAGGATTTTTGAAAACATCCTGCA
66 TACAGATGACCCGA-AGGCTTTAAATATCAAAAAGCTCCCGAAGGATTTTTGAAAACATCCTGCA
3148013 CTGTAGGTCTTATGGATG
130 CTGTAGGTCTTATGGATG
3148031 TGGGAAATAA
Statistics
Matches: 568, Mismatches: 35, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
230 58 0.10
231 304 0.54
232 118 0.21
233 88 0.15
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (232 bp):
AAAACATCATGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCATTGTAGGTCT
TACAGATGACCCGAAGGCTTTAAATATCAAAAAGCTCCCGAAGGATTTTTGAAAACATCCTGCAC
TGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTACATCATAGGTCTTACAGATGACCCAG
AGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTG
Found at i:3149336 original size:215 final size:216
Alignment explanation
Indices: 3148949--3149381 Score: 726
Period size: 215 Copynumber: 2.0 Consensus size: 216
3148939 TCTTGTTGTT
*
3148949 AAAATTTCAGCTTCCTTTCTGTGGAAAGAAATATTCATCATATCTCACTTCTAACCTTGGGGTTG
1 AAAATTTCAGCTTCCCTTCTGTGGAAAGAAATATTCATCATATCTCACTTCTAACCTTGGGGTTG
*
3149014 AAGAAGTAAAAATTCATCTTTGGGTCCATAAATGGAAATACCATATGATTGCAACATTGTTTCAG
66 AAGAAGTAAAAATTCATCTTTGGGTCCATAAATGGAAATACCATATGATTGCAACATTGGTTCAG
* * * *
3149079 CAACATAGTCACTGGTTCATAAAACATTTGGCAACGCATTCATCCTTTCCTGTGGCTTCTGCT-C
131 CAACATAATCACTGGTTCATAAAACATTTGGCAACACATTCATCATTTCATGTGGCTTCTG-TAC
*
3149143 AGATGTTCGTAAAACATTTGAC
195 AGATGTCCGTAAAACATTTGAC
* *
3149165 AAAATTTTAGCTTCCCTTCTGTGGAAAGAAATCTTCATCATATCTCACTTCTAACCTTGGGGTTG
1 AAAATTTCAGCTTCCCTTCTGTGGAAAGAAATATTCATCATATCTCACTTCTAACCTTGGGGTTG
*
3149230 AAGAAGTCAAAATTCATC-TTGGGTCCATAAATGGAAATACCATATGATTGCAACATTGGTTCAG
66 AAGAAGTAAAAATTCATCTTTGGGTCCATAAATGGAAATACCATATGATTGCAACATTGGTTCAG
* *
3149294 CACCATAATCACTGGTTCATAAAACATTTGGCAACACATTCATCATTTCATGTGTCTTCTGTACA
131 CAACATAATCACTGGTTCATAAAACATTTGGCAACACATTCATCATTTCATGTGGCTTCTGTACA
*
3149359 GATGTCCGTAATACATTTGAC
196 GATGTCCGTAAAACATTTGAC
3149380 AA
1 AA
3149382 CACATTCATC
Statistics
Matches: 203, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
214 1 0.00
215 123 0.61
216 79 0.39
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (216 bp):
AAAATTTCAGCTTCCCTTCTGTGGAAAGAAATATTCATCATATCTCACTTCTAACCTTGGGGTTG
AAGAAGTAAAAATTCATCTTTGGGTCCATAAATGGAAATACCATATGATTGCAACATTGGTTCAG
CAACATAATCACTGGTTCATAAAACATTTGGCAACACATTCATCATTTCATGTGGCTTCTGTACA
GATGTCCGTAAAACATTTGAC
Found at i:3166279 original size:21 final size:21
Alignment explanation
Indices: 3166205--3166290 Score: 77
Period size: 21 Copynumber: 4.0 Consensus size: 21
3166195 AACAGAACCC
*
3166205 CAGGGGGGGTATCGATTCCC-
1 CAGGGGGGGAATCGATTCCCT
* *
3166225 CTGTGGGGGGAATCGGTTCCCCTT
1 CAG-GGGGGGAATCGATT-CCC-T
** *
3166249 CAAAGGGGGAATCGGTTCCCT
1 CAGGGGGGGAATCGATTCCCT
3166270 CAGGGGGGG-ATCGATTCCCT
1 CAGGGGGGGAATCGATTCCCT
3166290 C
1 C
3166291 TGCACCAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
20 13 0.25
21 20 0.38
22 6 0.11
23 13 0.25
24 1 0.02
ACGTcount: A:0.15, C:0.26, G:0.37, T:0.22
Consensus pattern (21 bp):
CAGGGGGGGAATCGATTCCCT
Found at i:3170139 original size:22 final size:21
Alignment explanation
Indices: 3170097--3170136 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
3170087 GAGTTTGTTT
*
3170097 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
3170118 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
3170137 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:3179644 original size:54 final size:54
Alignment explanation
Indices: 3179512--3179940 Score: 579
Period size: 54 Copynumber: 8.1 Consensus size: 54
3179502 CATGTATTGC
*
3179512 ATTTACCGTATTGGCACTATGTGTGTAACCTAAGAAATTCATAATTAG-TT-TGA
1 ATTT-CCGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGA
* ** *
3179565 CTTTCTATATTGGCATTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGA
1 ATTTCCGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGA
* * *
3179619 CTTTCCGTATTGCCACTATGTGTGCAACCTAAAAAATTCATAATTAGTTTATGA
1 ATTTCCGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGA
* * * * *
3179673 ATTTCCGTATTGGCACTGTGTGTGCAACCTAATAAATTCATAATGAGCTTGTGA
1 ATTTCCGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGA
3179727 ATTTCCGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGA
1 ATTTCCGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGA
* * * *
3179781 ATTTCCGTATTGGCACTTTGTGTGCAACCTAAGATATTCATAATGAGTTTGTGA
1 ATTTCCGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGA
* *
3179835 ATTTCTGTATTAGCACTATGTGTG----C--A-AAATTCATAATTAGTTTATGA
1 ATTTCCGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGA
* *
3179882 ATTTTCGTATTGGCACTATGTGTACAACCTAAGAAATTCATAATTAGTTTCATGTA
1 ATTTCCGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTT-ATG-A
3179938 ATT
1 ATT
3179941 CATAATGAGT
Statistics
Matches: 329, Mismatches: 36, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
47 38 0.12
48 1 0.00
50 1 0.00
51 1 0.00
52 39 0.12
53 6 0.02
54 236 0.72
55 3 0.01
56 4 0.01
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (54 bp):
ATTTCCGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGA
Found at i:3187375 original size:55 final size:55
Alignment explanation
Indices: 3187287--3187493 Score: 301
Period size: 55 Copynumber: 3.8 Consensus size: 55
3187277 CTAAAGGCAT
* * * * **
3187287 TATGTGTGC-AACCCACAGAATTCATCATTAGTTGATGAATAACTATACAGACAC
1 TATGTGTGCAAATCCACGGAATTCATCATGAGTTGGTGAATAACCGTACAGACAC
* *
3187341 TATGTGTGAAAATCCACGGAATTCATCATGAGTTGGTGAATACCCGTACAGGA-AC
1 TATGTGTGCAAATCCACGGAATTCATCATGAGTTGGTGAATAACCGTACA-GACAC
* *
3187396 TATGTGTGCAAATCCACGAAATTCATCATGAGTTGGTGAATAACCGTACAGGCAC
1 TATGTGTGCAAATCCACGGAATTCATCATGAGTTGGTGAATAACCGTACAGACAC
3187451 TATGTGTGCAAATCCACGGAATTCATCATGAGTTGGTGAATAA
1 TATGTGTGCAAATCCACGGAATTCATCATGAGTTGGTGAATAA
3187494 TATGTGTGCA
Statistics
Matches: 137, Mismatches: 13, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
54 9 0.07
55 126 0.92
56 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (55 bp):
TATGTGTGCAAATCCACGGAATTCATCATGAGTTGGTGAATAACCGTACAGACAC
Found at i:3187521 original size:42 final size:43
Alignment explanation
Indices: 3187451--3187532 Score: 130
Period size: 42 Copynumber: 1.9 Consensus size: 43
3187441 GTACAGGCAC
* * *
3187451 TATGTGTGCAAATCCACGGAATTCATCATGAGTTGGTGAATAA
1 TATGTGTGCAAACCCACAGAATTCATCATGAGTTGATGAATAA
3187494 TATGTGTGC-AACCCACAGAATTCATCATGAGTTGATGAA
1 TATGTGTGCAAACCCACAGAATTCATCATGAGTTGATGAA
3187533 CTACCATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 27 0.75
43 9 0.25
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (43 bp):
TATGTGTGCAAACCCACAGAATTCATCATGAGTTGATGAATAA
Found at i:3194106 original size:54 final size:54
Alignment explanation
Indices: 3193949--3194402 Score: 531
Period size: 54 Copynumber: 8.4 Consensus size: 54
3193939 CTAAGTGTAC
*
3193949 TACAGGCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAATAACCA
1 TACAGGCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAATAACCG
*** * * * *
3194003 TACTTTCACTATGTGTACAAATCCACAAAATTCATCATGAGTTGGTGAATAACCG
1 TACAGGCACTATGTGTGC-AACCCACAGAATTCATCATGAGTTGATGAATAACCG
* *
3194058 TGCAGGCACTATGTGTGCAACCCACGGAATTCATCATGAGTTGATGAATAACCG
1 TACAGGCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAATAACCG
* * * * * *
3194112 TACATGCACTATGTGTGAAAATCCACGGAATTCATCATGAGTTGGTGAATAACCA
1 TACAGGCACTATGTGTG-CAACCCACAGAATTCATCATGAGTTGATGAATAACCG
* *
3194167 TACAGGCACTATGTGTGCAAATCCA-AGGAATTCATCATGAGTT-AGTGAATAATCG
1 TACAGGCACTATGTGTGC-AACCCACA-GAATTCATCATGAGTTGA-TGAATAACCG
* * *
3194222 TACAGGCACTATGTGTTCAACCCACGGAATTAATCATGAGTTGATGAATAACCG
1 TACAGGCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAATAACCG
* * * * *
3194276 TACAGGCACTATGTGT-CAAATCCACAGAATTCATCTTGAGTTGGTGTATAACCA
1 TACAGGCACTATGTGTGC-AACCCACAGAATTCATCATGAGTTGATGAATAACCG
* * *
3194330 TACAGGCACTATGTGTGCAACCCACATAGTTCATCATAAGTTGATGAACT-ACCG
1 TACAGGCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAA-TAACCG
*
3194384 TATAGGCACTACT-TGTGCA
1 TACAGGCACTA-TGTGTGCA
3194403 TTCTAATAAA
Statistics
Matches: 339, Mismatches: 50, Indels: 22
0.82 0.12 0.05
Matches are distributed among these distances:
53 1 0.00
54 193 0.57
55 145 0.43
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (54 bp):
TACAGGCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAATAACCG
Found at i:3194144 original size:109 final size:109
Alignment explanation
Indices: 3193949--3194402 Score: 526
Period size: 109 Copynumber: 4.2 Consensus size: 109
3193939 CTAAGTGTAC
***
3193949 TACAGGCACTATGTGTGC-AACCCACAGAATTCATCATGAGTTGATGAATAACCATACTTTCACT
1 TACAGGCACTATGTGTGCAAACCCACAGAATTCATCATGAGTTGATGAATAACCATACAGGCACT
**
3194013 ATGTGTACAAATCCACAAAATTCATCATGAGTTGGTGAATAACCG
66 ATGTGTA-AAATCCACGGAATTCATCATGAGTTGGTGAATAACCG
* * * *
3194058 TGCAGGCACTATGTGTGC-AACCCACGGAATTCATCATGAGTTGATGAATAACCGTACATGCACT
1 TACAGGCACTATGTGTGCAAACCCACAGAATTCATCATGAGTTGATGAATAACCATACAGGCACT
*
3194122 ATGTGTGAAAATCCACGGAATTCATCATGAGTTGGTGAATAACCA
66 ATGTGT-AAAATCCACGGAATTCATCATGAGTTGGTGAATAACCG
* * *
3194167 TACAGGCACTATGTGTGCAAATCCA-AGGAATTCATCATGAGTT-AGTGAATAATCGTACAGGCA
1 TACAGGCACTATGTGTGCAAACCCACA-GAATTCATCATGAGTTGA-TGAATAACCATACAGGCA
** * * *
3194230 CTATGTGTTCAACCCACGGAATTAATCATGAGTTGATGAATAACCG
64 CTATGTGTAAAATCCACGGAATTCATCATGAGTTGGTGAATAACCG
* * * *
3194276 TACAGGCACTATGTGT-CAAATCCACAGAATTCATCTTGAGTTGGTGTATAACCATACAGGCACT
1 TACAGGCACTATGTGTGCAAACCCACAGAATTCATCATGAGTTGATGAATAACCATACAGGCACT
** * ** * * *
3194340 ATGTGTGCAACCCACATAGTTCATCATAAGTTGATGAACT-ACCG
66 ATGTGTAAAATCCACGGAATTCATCATGAGTTGGTGAA-TAACCG
*
3194384 TATAGGCACTACT-TGTGCA
1 TACAGGCACTA-TGTGTGCA
3194403 TTCTAATAAA
Statistics
Matches: 305, Mismatches: 31, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
108 89 0.29
109 170 0.56
110 46 0.15
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (109 bp):
TACAGGCACTATGTGTGCAAACCCACAGAATTCATCATGAGTTGATGAATAACCATACAGGCACT
ATGTGTAAAATCCACGGAATTCATCATGAGTTGGTGAATAACCG
Found at i:3194246 original size:164 final size:163
Alignment explanation
Indices: 3193949--3194402 Score: 621
Period size: 164 Copynumber: 2.8 Consensus size: 163
3193939 CTAAGTGTAC
* * * ***
3193949 TACAGGCACTATGTGTGCAACCCACAGAATTCATCATGAGTTGATGAATAACCATACTTTCACTA
1 TACAGGCACTATGTGTGAAATCCACAGAATTCATCATGAGTTGGTGAATAACCATACAGGCACTA
* * *
3194014 TGTGTACAAATCCACAAAATTCATCATGAGTTGGTGAATAACCGTGCAGGCACTATGTGTGCAAC
66 TGTGTGCAAATCCACAAAATTCATCATGAGTTAGTGAATAACCGTACAGGCACTATGTGTGCAAC
*
3194079 CCACGGAATTCATCATGAGTTGATGAATAACCG
131 CCACGGAATTAATCATGAGTTGATGAATAACCG
* *
3194112 TACATGCACTATGTGTGAAAATCCACGGAATTCATCATGAGTTGGTGAATAACCATACAGGCACT
1 TACAGGCACTATGTGTG-AAATCCACAGAATTCATCATGAGTTGGTGAATAACCATACAGGCACT
* * *
3194177 ATGTGTGCAAATCCA-AGGAATTCATCATGAGTTAGTGAATAATCGTACAGGCACTATGTGTTCA
65 ATGTGTGCAAATCCACA-AAATTCATCATGAGTTAGTGAATAACCGTACAGGCACTATGTGTGCA
3194241 ACCCACGGAATTAATCATGAGTTGATGAATAACCG
129 ACCCACGGAATTAATCATGAGTTGATGAATAACCG
* * *
3194276 TACAGGCACTATGTGTCAAATCCACAGAATTCATCTTGAGTTGGTGTATAACCATACAGGCACTA
1 TACAGGCACTATGTGTGAAATCCACAGAATTCATCATGAGTTGGTGAATAACCATACAGGCACTA
* * * * *
3194341 TGTGTGC-AACCCACATAGTTCATCATAAGTT-GATGAACT-ACCGTATAGGCACTACT-TGTGC
66 TGTGTGCAAATCCACAAAATTCATCATGAGTTAG-TGAA-TAACCGTACAGGCACTA-TGTGTGC
3194402 A
128 A
3194403 TTCTAATAAA
Statistics
Matches: 258, Mismatches: 27, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
161 1 0.00
162 40 0.16
163 72 0.28
164 145 0.56
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (163 bp):
TACAGGCACTATGTGTGAAATCCACAGAATTCATCATGAGTTGGTGAATAACCATACAGGCACTA
TGTGTGCAAATCCACAAAATTCATCATGAGTTAGTGAATAACCGTACAGGCACTATGTGTGCAAC
CCACGGAATTAATCATGAGTTGATGAATAACCG
Found at i:3196254 original size:76 final size:76
Alignment explanation
Indices: 3196147--3196298 Score: 304
Period size: 76 Copynumber: 2.0 Consensus size: 76
3196137 CTTCCATTTC
3196147 TTTGAAAATGCCAATGGAAAACGGTGTAAAATCTCCTTCATCGTCATCTAGTGTGAATCACCCCC
1 TTTGAAAATGCCAATGGAAAACGGTGTAAAATCTCCTTCATCGTCATCTAGTGTGAATCACCCCC
3196212 GACAAGATTGG
66 GACAAGATTGG
3196223 TTTGAAAATGCCAATGGAAAACGGTGTAAAATCTCCTTCATCGTCATCTAGTGTGAATCACCCCC
1 TTTGAAAATGCCAATGGAAAACGGTGTAAAATCTCCTTCATCGTCATCTAGTGTGAATCACCCCC
3196288 GACAAGATTGG
66 GACAAGATTGG
3196299 CTTGCGTTGT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (76 bp):
TTTGAAAATGCCAATGGAAAACGGTGTAAAATCTCCTTCATCGTCATCTAGTGTGAATCACCCCC
GACAAGATTGG
Found at i:3199941 original size:34 final size:34
Alignment explanation
Indices: 3199898--3199982 Score: 152
Period size: 34 Copynumber: 2.5 Consensus size: 34
3199888 TATGATTGAT
3199898 CTCTCGGCGTCTTCAGTTGGATTCTTCATAGGAA
1 CTCTCGGCGTCTTCAGTTGGATTCTTCATAGGAA
*
3199932 CTCTCGGCGTCTTCAGTTGGATTCTTCGTAGGAA
1 CTCTCGGCGTCTTCAGTTGGATTCTTCATAGGAA
*
3199966 ATCTCGGCGTCTTCAGT
1 CTCTCGGCGTCTTCAGT
3199983 GCTGTGCATG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.15, C:0.25, G:0.25, T:0.35
Consensus pattern (34 bp):
CTCTCGGCGTCTTCAGTTGGATTCTTCATAGGAA
Found at i:3200036 original size:22 final size:22
Alignment explanation
Indices: 3200004--3200057 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
3199994 GACTGGACGT
*
3200004 GAGAAATCACGGGTTCTGCAAG
1 GAGAAAGCACGGGTTCTGCAAG
3200026 GAGAAAGCACGGGTTCTGCAAG
1 GAGAAAGCACGGGTTCTGCAAG
3200048 GAGAAAGCAC
1 GAGAAAGCAC
3200058 AGAAATCACG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.33, T:0.13
Consensus pattern (22 bp):
GAGAAAGCACGGGTTCTGCAAG
Found at i:3200113 original size:23 final size:24
Alignment explanation
Indices: 3200087--3200131 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
3200077 TCCTGCAGGG
3200087 CTGCACGTCTGCATG-TGGGGGTC
1 CTGCACGTCTGCATGTTGGGGGTC
3200110 CTGCACGTCTGCATGTTGGGGG
1 CTGCACGTCTGCATGTTGGGGG
3200132 CATGCAACTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.09, C:0.24, G:0.40, T:0.27
Consensus pattern (24 bp):
CTGCACGTCTGCATGTTGGGGGTC
Found at i:3200137 original size:23 final size:21
Alignment explanation
Indices: 3200084--3200137 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 21
3200074 GGGTCCTGCA
3200084 GGGCTGCACGTCTGCATGTGG
1 GGGCTGCACGTCTGCATGTGG
3200105 GGGTCCTGCACGTCTGCATGTTGG
1 GGG--CTGCACGTCTGCATG-TGG
3200129 GGGCATGCA
1 GGGC-TGCA
3200138 ACTGTTGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 3 0.10
22 1 0.03
23 19 0.66
24 6 0.21
ACGTcount: A:0.11, C:0.24, G:0.41, T:0.24
Consensus pattern (21 bp):
GGGCTGCACGTCTGCATGTGG
Found at i:3202467 original size:18 final size:18
Alignment explanation
Indices: 3202446--3202490 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
3202436 TTTATTATTT
3202446 TTTATTATAATATTGTT-A
1 TTTATTATAAT-TTGTTGA
3202464 TTTA-T-TAATTTGTTGA
1 TTTATTATAATTTGTTGA
3202480 TTT-TTATAATT
1 TTTATTATAATT
3202491 ATTTAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
15 5 0.21
16 9 0.38
17 6 0.25
18 4 0.17
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (18 bp):
TTTATTATAATTTGTTGA
Found at i:3202702 original size:19 final size:19
Alignment explanation
Indices: 3202678--3202718 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
3202668 TCGGCTTCCA
3202678 CCAACATATTCCAGTCATT
1 CCAACATATTCCAGTCATT
3202697 CCAACATATTCCAGTCATT
1 CCAACATATTCCAGTCATT
3202716 CCA
1 CCA
3202719 GAGAATCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.34, G:0.05, T:0.29
Consensus pattern (19 bp):
CCAACATATTCCAGTCATT
Found at i:3203005 original size:6 final size:6
Alignment explanation
Indices: 3202994--3203030 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
3202984 CAAGAAGGAC
*
3202994 TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG TAGGAG T
1 TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG TGGGAG T
3203031 TCTTCTCACC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.19, C:0.00, G:0.62, T:0.19
Consensus pattern (6 bp):
TGGGAG
Found at i:3203017 original size:18 final size:18
Alignment explanation
Indices: 3202989--3203030 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
3202979 GAAACCAAGA
*
3202989 AGGACTGGGAGTGGGAGT
1 AGGAGTGGGAGTGGGAGT
*
3203007 GGGAGTGGGAGTGGGAGT
1 AGGAGTGGGAGTGGGAGT
3203025 AGGAGT
1 AGGAGT
3203031 TCTTCTCACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.02, G:0.60, T:0.17
Consensus pattern (18 bp):
AGGAGTGGGAGTGGGAGT
Found at i:3203521 original size:42 final size:41
Alignment explanation
Indices: 3203475--3204073 Score: 272
Period size: 42 Copynumber: 15.8 Consensus size: 41
3203465 AATATATTAC
* *
3203475 TATTATTATATCAGT-AAATATAAATCATTAAAGTCAAGTAA
1 TATTATTAAATCATTAAAAT-TAAATCATTAAAGTCAAGTAA
* *
3203516 TTATTATTAAATCATTAAAATTAAATCATTAAAATTAAGTAA
1 -TATTATTAAATCATTAAAATTAAATCATTAAAGTCAAGTAA
*
3203558 T-TTATTAAATTATTAAAATTAAATCATTAAAGT-AA-T--
1 TATTATTAAATCATTAAAATTAAATCATTAAAGTCAAGTAA
*
3203594 TATTATT-AATCATTAACATT-AATCATT--A---AAGTAA
1 TATTATTAAATCATTAAAATTAAATCATTAAAGTCAAGTAA
* * *
3203628 TATTATTAAAGCATTAAAGTTAAATCATTAAAGT-AA-TTA
1 TATTATTAAATCATTAAAATTAAATCATTAAAGTCAAGTAA
* *
3203667 TATTAAATCATAAATCATTAAGTAATT--ATTATTAAA-TC-ATTAA
1 TATT--AT--TAAATCATTAA--AATTAAATCATTAAAGTCAAGTAA
* * *
3203710 -ATCATTAAATCATT-AAAGT-AATTATT-AA-TC-----A
1 TATTATTAAATCATTAAAATTAAATCATTAAAGTCAAGTAA
3203741 TA--ATTAAATCATTAAAATTAAATCATTAAAGT--A-T--
1 TATTATTAAATCATTAAAATTAAATCATTAAAGTCAAGTAA
3203775 TA-T-TTAAATCATTAAAATTAAATCATTAAAGT-AA-T--
1 TATTATTAAATCATTAAAATTAAATCATTAAAGTCAAGTAA
*
3203810 TATTATTAAATCATTAAAGTT-AATCATT--A---AAGT-A
1 TATTATTAAATCATTAAAATTAAATCATTAAAGTCAAGTAA
* * * * * *
3203844 -ATTATTAAATCATTAAAGTTAAATAATTATTA-TTAAATCA
1 TATTATTAAATCATTAAAATTAAATCATTA-AAGTCAAGTAA
* * * *
3203884 T-TAAAGTTAAATCATT-AAAGTAATTATTATTAAA-TC-ATTAA
1 TAT-TA-TTAAATCATTAAAATTAA--ATCATTAAAGTCAAGTAA
* * * * *
3203925 -ATCATTAAATCATT-AAAGTAATTATTATTAAACATTAAAGTTAA
1 TATTATTAAATCATTAAAATTAA--ATCATT-AA-AGTCAAG-TAA
*
3203969 -ATCATTAAATCATTAAAATTAAATCATTAAAGT-AA-T--
1 TATTATTAAATCATTAAAATTAAATCATTAAAGTCAAGTAA
3204005 TATTATTAAATCATTAAAATTAAATCATT--A---AAGTAA
1 TATTATTAAATCATTAAAATTAAATCATTAAAGTCAAGTAA
*
3204041 TATTATTAAATCATT-AAAGTAAATCATTAAAGT
1 TATTATTAAATCATTAAAATTAAATCATTAAAGT
3204074 ATTATTATTA
Statistics
Matches: 458, Mismatches: 39, Indels: 123
0.74 0.06 0.20
Matches are distributed among these distances:
30 11 0.02
31 7 0.02
32 10 0.02
33 26 0.06
34 47 0.10
35 41 0.09
36 48 0.10
37 50 0.11
38 12 0.03
39 36 0.08
40 41 0.09
41 16 0.03
42 51 0.11
43 36 0.08
44 17 0.04
45 9 0.02
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (41 bp):
TATTATTAAATCATTAAAATTAAATCATTAAAGTCAAGTAA
Found at i:3203532 original size:14 final size:14
Alignment explanation
Indices: 3203521--3204071 Score: 198
Period size: 14 Copynumber: 39.0 Consensus size: 14
3203511 AGTAATTATT
3203521 ATTAAATCATTAAA
1 ATTAAATCATTAAA
3203535 ATTAAATCATTAAA
1 ATTAAATCATTAAA
* * *
3203549 ATTAAGTAATT--T
1 ATTAAATCATTAAA
*
3203561 ATTAAATTATTAAA
1 ATTAAATCATTAAA
3203575 ATTAAATCATT-AA
1 ATTAAATCATTAAA
* *
3203588 AGT-AATTATT---
1 ATTAAATCATTAAA
*
3203598 ATT-AATCATTAAC
1 ATTAAATCATTAAA
3203611 ATT-AATCATT-AA
1 ATTAAATCATTAAA
* *
3203623 AGTAATATTATTAAA
1 ATTAA-ATCATTAAA
*
3203638 GCATTAAA--GTTAAA
1 --ATTAAATCATTAAA
* *
3203652 TCATTAAAGTAATT-AT
1 --ATTAAA-TCATTAAA
3203668 ATTAAATCA-TAAA
1 ATTAAATCATTAAA
* * **
3203681 TCATTAAGTAATTATT
1 --ATTAAATCATTAAA
3203697 ATTAAATCATTAAA
1 ATTAAATCATTAAA
3203711 TCATTAAATCATTAAAGTA
1 --ATTAAATCATT-AA--A
3203730 ATTATTAATCA-T--A
1 ATTA--AATCATTAAA
3203743 ATTAAATCATTAAA
1 ATTAAATCATTAAA
3203757 ATTAAATCATTAAAGTA
1 ATTAAATCATT-AA--A
3203774 TTATTTAAATCATTAAA
1 --A-TTAAATCATTAAA
3203791 ATTAAATCATT-AA
1 ATTAAATCATTAAA
* *
3203804 AGT-AATTATT---
1 ATTAAATCATTAAA
3203814 ATTAAATCATTAAA
1 ATTAAATCATTAAA
*
3203828 GTT-AATCATTAAAGTAA
1 ATTAAATCATT--A--AA
3203845 TTATTAAATCATTAAA
1 --ATTAAATCATTAAA
* * **
3203861 GTTAAATAATTATT
1 ATTAAATCATTAAA
3203875 ATTAAATCATTAAA
1 ATTAAATCATTAAA
*
3203889 GTTAAATCATT-AA
1 ATTAAATCATTAAA
* *
3203902 AGTAATTATTATTAAA
1 ATTAA--ATCATTAAA
3203918 TCATTAAATCATTAAA
1 --ATTAAATCATTAAA
* **
3203934 TCATTAAAGTAATTATT
1 --ATTAAA-TCATTAAA
3203951 ATTAAA-CATTAAA
1 ATTAAATCATTAAA
*
3203964 GTTAAATCATTAAA
1 ATTAAATCATTAAA
3203978 TCATTAAA--ATTAAA
1 --ATTAAATCATTAAA
* **
3203992 TCATTAAAGTAATTATT
1 --ATTAAA-TCATTAAA
3204009 ATTAAATCATTAAA
1 ATTAAATCATTAAA
3204023 ATTAAATCATT-AA
1 ATTAAATCATTAAA
*
3204036 AGT-AAT-ATT---
1 ATTAAATCATTAAA
3204045 ATTAAATCATT-AA
1 ATTAAATCATTAAA
*
3204058 AGTAAATCATTAAA
1 ATTAAATCATTAAA
3204072 GTATTATTAT
Statistics
Matches: 411, Mismatches: 65, Indels: 122
0.69 0.11 0.20
Matches are distributed among these distances:
9 2 0.00
10 13 0.03
11 17 0.04
12 29 0.07
13 62 0.15
14 159 0.39
15 30 0.07
16 40 0.10
17 25 0.06
18 6 0.01
19 11 0.03
20 17 0.04
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (14 bp):
ATTAAATCATTAAA
Found at i:3203547 original size:22 final size:22
Alignment explanation
Indices: 3203521--3204118 Score: 164
Period size: 22 Copynumber: 27.3 Consensus size: 22
3203511 AGTAATTATT
3203521 ATTAAATCATTAAAATTAAATC
1 ATTAAATCATTAAAATTAAATC
* * *
3203543 ATTAAA--ATT--AAGTAATTT
1 ATTAAATCATTAAAATTAAATC
*
3203561 ATTAAATTATTAAAATTAAATC
1 ATTAAATCATTAAAATTAAATC
* **
3203583 ATTAAAGTAATTATTATT-AATC
1 ATTAAA-TCATTAAAATTAAATC
* *
3203605 ATTAACATTAATCATT-AAAGTAATATT
1 ATT---A--AATCATTAAAATTAA-ATC
* *
3203632 ATTAAAGCATTAAAGTTAAATC
1 ATTAAATCATTAAAATTAAATC
* *
3203654 ATTAAAGTAATT-ATATTAAATC
1 ATTAAA-TCATTAAAATTAAATC
*
3203676 A-TAAATCATTAAGTAATT--ATT
1 ATTAAATCATTAA--AATTAAATC
3203697 ATTAAATCATTAAATCATTAAATC
1 ATTAAATCATTAAA--ATTAAATC
* *
3203721 ATTAAAGTAATT---ATTAATCATA
1 ATTAAA-TCATTAAAATTAA--ATC
3203743 ATTAAATCATTAAAATTAAATC
1 ATTAAATCATTAAAATTAAATC
*
3203765 ATTAAAGT-ATT--ATTTAAATC
1 ATTAAA-TCATTAAAATTAAATC
*
3203785 ATTAAA--ATTAAATCATTAAAGTA
1 ATTAAATCATTAAA--ATTAAA-TC
*
3203808 ATT--ATTATTAAATCATTAAA--
1 ATTAAATCATTAAA--ATTAAATC
* * *
3203828 GTT-AATCATT-AAAGT-AATT
1 ATTAAATCATTAAAATTAAATC
* *
3203847 ATTAAATCATTAAAGTTAAATA
1 ATTAAATCATTAAAATTAAATC
*
3203869 ATT--ATTATTAAATCATTAAA--
1 ATTAAATCATTAAA--ATTAAATC
* * *
3203889 GTTAAATCATT-AAAGTAATTATT
1 ATTAAATCATTAAAATTAA--ATC
3203912 ATTAAATCATTAAATCATTAAATC
1 ATTAAATCATTAAA--ATTAAATC
* **
3203936 ATTAAAGTAATTATTATTAAA-C
1 ATTAAA-TCATTAAAATTAAATC
*
3203958 ATTAAA--GTTAAATCATTAAATC
1 ATTAAATCATTAAA--ATTAAATC
*
3203980 ATTAAA--ATTAAATCATTAAAGTA
1 ATTAAATCATTAAA--ATTAAA-TC
*
3204003 ATT--ATTATTAAATCATTAAA--
1 ATTAAATCATTAAA--ATTAAATC
* *
3204023 ATTAAATCATT-AAAGTAATATT
1 ATTAAATCATTAAAATTAA-ATC
*
3204045 ATTAAATCATT-AAAGTAAATC
1 ATTAAATCATTAAAATTAAATC
**
3204066 ATTAAAGT-ATTATTATTAAATC
1 ATTAAA-TCATTAAAATTAAATC
* **
3204088 AAAGTTAAATAATTATTATTAAATC
1 --A-TTAAATCATTAAAATTAAATC
3204113 ATTAAA
1 ATTAAA
3204119 GTTAATAATT
Statistics
Matches: 443, Mismatches: 62, Indels: 142
0.68 0.10 0.22
Matches are distributed among these distances:
17 2 0.00
18 17 0.04
19 13 0.03
20 56 0.13
21 44 0.10
22 165 0.37
23 73 0.16
24 26 0.06
25 31 0.07
26 9 0.02
27 7 0.02
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (22 bp):
ATTAAATCATTAAAATTAAATC
Found at i:3203614 original size:13 final size:13
Alignment explanation
Indices: 3203598--3203622 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3203588 AGTAATTATT
3203598 ATTAATCATTAAC
1 ATTAATCATTAAC
3203611 ATTAATCATTAA
1 ATTAATCATTAA
3203623 AGTAATATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTAATCATTAAC
Found at i:3203736 original size:65 final size:63
Alignment explanation
Indices: 3203614--3204125 Score: 247
Period size: 59 Copynumber: 8.3 Consensus size: 63
3203604 CATTAACATT
*
3203614 AATCATTAAAGTAATATTATTAAAGCATTAAAGTTAAATCATTAAAGTAATTATATTAAATCATA
1 AATCATTAAAGTAATATTATTAAAGCATTAAAATTAAATCATTAAAGTAA-T-TATTAAATCATA
* *
3203679 AATCATT-AAGTAATTATTATTAAATCATTAAATCATTAAATCATTAAAGTAATTATTAATCATA
1 AATCATTAAAGTAA-TATTATTAAAGCATTAAA--ATTAAATCATTAAAGTAATTATTAA--ATC
3203743 ATTA
61 A-TA
* * * * * *
3203747 AATCATTAAAATTAA-ATCATTAAAGTATT--ATTTAAATCATTAAAATTAAATCATTAAAGTAA
1 AATCATT-AAAGTAATATTATTAAAGCATTAAAATTAAATCATT-AAAGT--A--ATT--ATTAA
*
3203809 TTATTATTA
58 --ATCA-TA
* * * * *
3203818 AATCATTAAAGTTA-ATCATTAAAG---TAATTATTAAATCATTAAAGTTAAATAATT--ATTAT
1 AATCATTAAAGTAATATTATTAAAGCATTAA-AATTAAATCATTAAAG-T-AATTATTAAATCA-
3203877 TA
62 TA
* * *
3203879 AATCATTAAAGTTAA-ATCATTAAAG---T--AATT--ATTATT--A--AATCATTAAATCATTA
1 AATCATTAAAG-TAATATTATTAAAGCATTAAAATTAAATCATTAAAGTAATTATTAAATCA-TA
* *
3203932 AATCATTAAAGTAATTATTATTAAA-CATTAAAGTTAAATCATTAAA-TCATTA--AAAT--TA
1 AATCATTAAAGTAA-TATTATTAAAGCATTAAAATTAAATCATTAAAGTAATTATTAAATCATA
*
3203990 AATCATTAAAGTAATTATTATTAAATCATTAAAATTAAATCATTAAAGTAA-TATT--AT--TA
1 AATCATTAAAGTAA-TATTATTAAAGCATTAAAATTAAATCATTAAAGTAATTATTAAATCATA
* * **
3204049 AATCATTAAAGTAA-ATCATTAAAGTATTATTATTAAATCAAAGTTAAA-TAATTATT--AT--T
1 AATCATTAAAGTAATATTATTAAAGCATTAAAATTAAATC--A-TTAAAGTAATTATTAAATCAT
3204108 A
63 A
3204109 AATCATTAAAGTTAATA
1 AATCATTAAAG-TAATA
3204126 ATTAAATTTA
Statistics
Matches: 367, Mismatches: 36, Indels: 91
0.74 0.07 0.18
Matches are distributed among these distances:
51 6 0.02
52 3 0.01
53 17 0.05
54 8 0.02
55 1 0.00
56 1 0.00
57 25 0.07
58 30 0.08
59 47 0.13
60 31 0.08
61 25 0.07
62 15 0.04
63 3 0.01
64 16 0.04
65 36 0.10
66 2 0.01
67 24 0.07
68 20 0.05
69 8 0.02
70 31 0.08
71 18 0.05
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (63 bp):
AATCATTAAAGTAATATTATTAAAGCATTAAAATTAAATCATTAAAGTAATTATTAAATCATA
Found at i:3204071 original size:8 final size:8
Alignment explanation
Indices: 3203521--3204036 Score: 195
Period size: 8 Copynumber: 68.8 Consensus size: 8
3203511 AGTAATTATT
3203521 ATTAAATC
1 ATTAAATC
3203529 ATTAAA--
1 ATTAAATC
3203535 ATTAAATC
1 ATTAAATC
*
3203543 ATTAAAATTA
1 ATT-AAA-TC
* * *
3203553 AGTAATTT
1 ATTAAATC
*
3203561 ATTAAATT
1 ATTAAATC
3203569 ATTAAA--
1 ATTAAATC
3203575 ATTAAATC
1 ATTAAATC
*
3203583 ATTAAAGTA
1 ATTAAA-TC
*
3203592 ATT--ATT
1 ATTAAATC
3203598 ATT-AATC
1 ATTAAATC
3203605 ATT-AA-C
1 ATTAAATC
3203611 ATT-AATC
1 ATTAAATC
3203618 ATTAAAGT-
1 ATTAAA-TC
* *
3203626 A--ATATT
1 ATTAAATC
*
3203632 ATTAAAGC
1 ATTAAATC
3203640 ATTAAA--
1 ATTAAATC
*
3203646 GTTAAATC
1 ATTAAATC
*
3203654 ATTAAAGTA
1 ATTAAA-TC
3203663 ATT--AT-
1 ATTAAATC
3203668 ATTAAATC
1 ATTAAATC
3203676 A-TAAATC
1 ATTAAATC
* *
3203683 ATTAAGTA
1 ATTAAATC
*
3203691 ATT--ATT
1 ATTAAATC
3203697 ATTAAATC
1 ATTAAATC
3203705 ATTAAATC
1 ATTAAATC
3203713 ATTAAATC
1 ATTAAATC
*
3203721 ATTAAAGTA
1 ATTAAA-TC
3203730 ATTATTAATC
1 ATTA--AATC
3203740 ATAATTAAATC
1 ---ATTAAATC
3203751 ATTAAA--
1 ATTAAATC
3203757 ATTAAATC
1 ATTAAATC
3203765 ATTAAAGT-
1 ATTAAA-TC
3203773 ATT--AT-
1 ATTAAATC
3203778 -TTAAATC
1 ATTAAATC
3203785 ATTAAA--
1 ATTAAATC
3203791 ATTAAATC
1 ATTAAATC
*
3203799 ATTAAAGTA
1 ATTAAA-TC
*
3203808 ATT--ATT
1 ATTAAATC
3203814 ATTAAATC
1 ATTAAATC
3203822 ATTAAA--
1 ATTAAATC
*
3203828 GTT-AATC
1 ATTAAATC
*
3203835 ATTAAAGTAATT
1 ATT--A--AATC
3203847 ATTAAATC
1 ATTAAATC
3203855 ATTAAA--
1 ATTAAATC
* *
3203861 GTTAAATA
1 ATTAAATC
*
3203869 ATT--ATT
1 ATTAAATC
3203875 ATTAAATC
1 ATTAAATC
3203883 ATTAAA--
1 ATTAAATC
*
3203889 GTTAAATC
1 ATTAAATC
*
3203897 ATTAAAGTA
1 ATTAAA-TC
*
3203906 ATT--ATT
1 ATTAAATC
3203912 ATTAAATC
1 ATTAAATC
3203920 ATTAAATC
1 ATTAAATC
3203928 ATTAAATC
1 ATTAAATC
*
3203936 ATTAAAGTA
1 ATTAAA-TC
*
3203945 ATT--ATT
1 ATTAAATC
3203951 ATTAAA-C
1 ATTAAATC
3203958 ATTAAA--
1 ATTAAATC
*
3203964 GTTAAATC
1 ATTAAATC
3203972 ATTAAATC
1 ATTAAATC
3203980 ATTAAA--
1 ATTAAATC
3203986 ATTAAATC
1 ATTAAATC
*
3203994 ATTAAAGTA
1 ATTAAA-TC
*
3204003 ATT--ATT
1 ATTAAATC
3204009 ATTAAATC
1 ATTAAATC
3204017 ATTAAA--
1 ATTAAATC
3204023 ATTAAATC
1 ATTAAATC
3204031 ATTAAA
1 ATTAAA
3204037 GTAATATTAT
Statistics
Matches: 392, Mismatches: 47, Indels: 138
0.68 0.08 0.24
Matches are distributed among these distances:
4 2 0.01
5 7 0.02
6 100 0.26
7 34 0.09
8 192 0.49
9 36 0.09
10 5 0.01
11 6 0.02
12 6 0.02
13 4 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.40
Consensus pattern (8 bp):
ATTAAATC
Found at i:3204117 original size:60 final size:57
Alignment explanation
Indices: 3203757--3204132 Score: 294
Period size: 59 Copynumber: 6.5 Consensus size: 57
3203747 AATCATTAAA
* *
3203757 ATTAAATCATTAAAGT-ATTATTTAAATCATTAAAATTAAATCATTAAAGTAATTATT
1 ATTAAATCATTAAAGTAAATAATTAAATCATTAAAATTAAATCATTAAAGTAA-TATT
* * *
3203814 ATTAAATCATTAAAGTTAATCATTAAAGTAATT---ATTAAATCATTAAAGTTAAATAATTATT
1 ATTAAATCATTAAAGTAAATAATTAAA-TCATTAAAATTAAATCATTAAAG-----TAA-TATT
* * ** *
3203875 ATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCA-T----TAA-ATC
1 ATTAAATCATTAAAG-TAAATAATTAAA-TCATTAAAATTAAATCATTAAAGTAATATT
* * * **
3203928 ATTAAATCATTAAAGTAATTATTATTAAA-CATTAAAGTTAAATCATTAAA-TCATTAAA
1 ATTAAATCATTAAAGTAA--ATAATTAAATCATTAAAATTAAATCATTAAAGT-AATATT
*
3203986 ATTAAATCATTAAAGTAATTATTATTAAATCATTAAAATTAAATCATTAAAGTAATATT
1 ATTAAATCATTAAAGTAA--ATAATTAAATCATTAAAATTAAATCATTAAAGTAATATT
* **
3204045 ATTAAATCATTAAAGTAAATCATTAAAGT-ATTATTATTAAATCAAAGTTAAA-TAATTATT
1 ATTAAATCATTAAAGTAAATAATTAAA-TCATTAAAATTAAATC--A-TTAAAGTAA-TATT
*
3204105 ATTAAATCATTAAAGTTAATAATTAAAT
1 ATTAAATCATTAAAGTAAATAATTAAAT
3204133 TTAAATAATT
Statistics
Matches: 270, Mismatches: 23, Indels: 50
0.79 0.07 0.15
Matches are distributed among these distances:
52 15 0.06
53 18 0.07
54 8 0.03
55 3 0.01
56 16 0.06
57 37 0.14
58 38 0.14
59 50 0.19
60 35 0.13
61 23 0.09
62 17 0.06
64 1 0.00
65 9 0.03
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (57 bp):
ATTAAATCATTAAAGTAAATAATTAAATCATTAAAATTAAATCATTAAAGTAATATT
Found at i:3204119 original size:28 final size:24
Alignment explanation
Indices: 3204074--3204129 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 24
3204064 TCATTAAAGT
3204074 ATTATTATTAAATCAAAGTTAAATA
1 ATTATTATTAAATCAAAGTT-AATA
3204099 ATTATTATTAAATCATTAAAGTTAATA
1 ATTATTATTAAATC---AAAGTTAATA
3204126 ATTA
1 ATTA
3204130 AATTTAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 14 0.50
27 8 0.29
28 6 0.21
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (24 bp):
ATTATTATTAAATCAAAGTTAATA
Found at i:3204153 original size:14 final size:14
Alignment explanation
Indices: 3203848--3204143 Score: 75
Period size: 14 Copynumber: 20.8 Consensus size: 14
3203838 AAAGTAATTA
*
3203848 TTAAATCATTAAAG
1 TTAAATAATTAAAG
*
3203862 TTAAATAATTATTA-
1 TTAAATAATTA-AAG
*
3203876 TTAAATCATTAAAG
1 TTAAATAATTAAAG
*
3203890 TTAAATCATTAAAG
1 TTAAATAATTAAAG
* *
3203904 -TAATTATTATTAAATCA
1 TTAA--ATAATTAAA--G
* *
3203921 TTAAATCATTAAATCA
1 TTAAATAATTAAA--G
*
3203937 TTAAAGTAATTATTA-
1 TTAAA-TAATTA-AAG
*
3203952 TTAAA-CATTAAAG
1 TTAAATAATTAAAG
*
3203965 TTAAATCATTAAA-
1 TTAAATAATTAAAG
* *
3203978 TCATTAA-AATTAAATCA
1 T--TAAATAATTAAA--G
*
3203995 TTAAAGTAATTATTA-
1 TTAAA-TAATTA-AAG
* *
3204010 TTAAATCATTAAAA
1 TTAAATAATTAAAG
*
3204024 TTAAATCATTAAAG
1 TTAAATAATTAAAG
3204038 -T-AAT-ATT--A-
1 TTAAATAATTAAAG
*
3204046 TTAAATCATTAAAG
1 TTAAATAATTAAAG
*
3204060 -TAAATCATTAAAG
1 TTAAATAATTAAAG
* *
3204073 TATTATTATTAAATCAAAG
1 --TTA--AAT-AATTAAAG
*
3204092 TTAAATAATTATTA-
1 TTAAATAATTA-AAG
*
3204106 TTAAATCATTAAAG
1 TTAAATAATTAAAG
*
3204120 TT-AATAATTAAAT
1 TTAAATAATTAAAG
3204133 TTAAATAATTA
1 TTAAATAATTA
3204144 TTATTAAATA
Statistics
Matches: 219, Mismatches: 28, Indels: 70
0.69 0.09 0.22
Matches are distributed among these distances:
9 2 0.01
10 3 0.01
11 6 0.03
12 4 0.02
13 42 0.19
14 89 0.41
15 28 0.13
16 18 0.08
17 14 0.06
18 7 0.03
19 6 0.03
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (14 bp):
TTAAATAATTAAAG
Found at i:3207466 original size:18 final size:18
Alignment explanation
Indices: 3207443--3207491 Score: 98
Period size: 18 Copynumber: 2.7 Consensus size: 18
3207433 GCATACAACA
3207443 AATCTCACGCTTCAGACG
1 AATCTCACGCTTCAGACG
3207461 AATCTCACGCTTCAGACG
1 AATCTCACGCTTCAGACG
3207479 AATCTCACGCTTC
1 AATCTCACGCTTC
3207492 GGCCACAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (18 bp):
AATCTCACGCTTCAGACG
Found at i:3207917 original size:34 final size:34
Alignment explanation
Indices: 3207830--3207909 Score: 160
Period size: 34 Copynumber: 2.4 Consensus size: 34
3207820 GTAGCATGCA
3207830 GAAGACGCCGAGAGATCCCACAGTCCAATTGCTT
1 GAAGACGCCGAGAGATCCCACAGTCCAATTGCTT
3207864 GAAGACGCCGAGAGATCCCACAGTCCAATTGCTT
1 GAAGACGCCGAGAGATCCCACAGTCCAATTGCTT
3207898 GAAGACGCCGAG
1 GAAGACGCCGAG
3207910 CATTCCCATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.30, C:0.29, G:0.26, T:0.15
Consensus pattern (34 bp):
GAAGACGCCGAGAGATCCCACAGTCCAATTGCTT
Found at i:3212941 original size:16 final size:15
Alignment explanation
Indices: 3212902--3212944 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
3212892 CATTTATTTG
3212902 AACATAATATTTAAT
1 AACATAATATTTAAT
* **
3212917 AAAATAATATTTCTT
1 AACATAATATTTAAT
3212932 CAACATAATATTT
1 -AACATAATATTT
3212945 GTAACATCCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (15 bp):
AACATAATATTTAAT
Found at i:3213675 original size:21 final size:21
Alignment explanation
Indices: 3213649--3213693 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3213639 GATTTCTGGG
* *
3213649 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
3213670 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
3213691 CAA
1 CAA
3213694 ACGAACAAGA
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:3215408 original size:23 final size:23
Alignment explanation
Indices: 3215342--3215400 Score: 102
Period size: 22 Copynumber: 2.6 Consensus size: 23
3215332 ATCATTATAT
*
3215342 GGCACTACGGTGCAATTCTAC-G
1 GGCACTTCGGTGCAATTCTACGG
3215364 GGCACTTCGGTGCAATTCTACGG
1 GGCACTTCGGTGCAATTCTACGG
3215387 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
3215401 TTTATACGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 20 0.57
23 15 0.43
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.24
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGG
Found at i:3218593 original size:21 final size:21
Alignment explanation
Indices: 3218567--3218611 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3218557 GATTTCTGGG
* *
3218567 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
3218588 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
3218609 CAA
1 CAA
3218612 ACGAACAAGA
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:3220326 original size:23 final size:23
Alignment explanation
Indices: 3220260--3220318 Score: 102
Period size: 22 Copynumber: 2.6 Consensus size: 23
3220250 ATCATTATAT
*
3220260 GGCACTACGGTGCAATTCTAC-G
1 GGCACTTCGGTGCAATTCTACGG
3220282 GGCACTTCGGTGCAATTCTACGG
1 GGCACTTCGGTGCAATTCTACGG
3220305 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
3220319 TTTATACGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
22 20 0.57
23 15 0.43
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.24
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGG
Found at i:3221047 original size:17 final size:17
Alignment explanation
Indices: 3221022--3221064 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
3221012 CTTTAATAAA
*
3221022 ATAACATTTATTGAAAC
1 ATAATATTTATTGAAAC
* *
3221039 ATAATATTT-TTTATAC
1 ATAATATTTATTGAAAC
3221055 ATAATATTTA
1 ATAATATTTA
3221065 ATAAATTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (17 bp):
ATAATATTTATTGAAAC
Found at i:3229546 original size:14 final size:14
Alignment explanation
Indices: 3229527--3229554 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3229517 GCTCCAAATC
3229527 GTTTCCATCATTCA
1 GTTTCCATCATTCA
3229541 GTTTCCATCATTCA
1 GTTTCCATCATTCA
3229555 CAAAAACACA
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:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (14 bp):
GTTTCCATCATTCA
Found at i:3230078 original size:22 final size:23
Alignment explanation
Indices: 3230051--3230094 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3230041 AACGTTATAC
3230051 ATTAAAC-TAAAACAAAAAAAAT
1 ATTAAACATAAAACAAAAAAAAT
* *
3230073 ATTAAACATTAAACTAAAAAAA
1 ATTAAACATAAAACAAAAAAAA
3230095 CAGATGTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.20
Consensus pattern (23 bp):
ATTAAACATAAAACAAAAAAAAT
Found at i:3234079 original size:14 final size:14
Alignment explanation
Indices: 3234060--3234087 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3234050 GTTTCACAGC
3234060 AAACTCTTTTGTTT
1 AAACTCTTTTGTTT
3234074 AAACTCTTTTGTTT
1 AAACTCTTTTGTTT
3234088 CTTTCTTAGA
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:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (14 bp):
AAACTCTTTTGTTT
Found at i:3242456 original size:15 final size:15
Alignment explanation
Indices: 3242436--3242479 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
3242426 TTCGATTGTA
3242436 AGAAGAAAGAAAGGG
1 AGAAGAAAGAAAGGG
*
3242451 AGAAGAAAGAAAAGG
1 AGAAGAAAGAAAGGG
3242466 AGAAGAAAGAAAGG
1 AGAAGAAAGAAAGG
3242480 AAAGGAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (15 bp):
AGAAGAAAGAAAGGG
Found at i:3242482 original size:20 final size:19
Alignment explanation
Indices: 3242438--3242492 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 19
3242428 CGATTGTAAG
*
3242438 AAGAAAGAAAGGGAGAAGA
1 AAGAAAGAAAGGAAGAAGA
3242457 AAG--A-AAAGG-AGAAGA
1 AAGAAAGAAAGGAAGAAGA
3242472 AAGAAAGGAAAGGAAGAAGA
1 AAGAAA-GAAAGGAAGAAGA
3242492 A
1 A
3242493 GAAGGGCCCG
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
15 9 0.29
16 5 0.16
17 2 0.06
19 8 0.26
20 7 0.23
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAAGGAAGAAGA
Found at i:3242494 original size:19 final size:18
Alignment explanation
Indices: 3242435--3242495 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 18
3242425 GTTCGATTGT
3242435 AAGAAGAAA-GAAAGG-G
1 AAGAAGAAAGGAAAGGAG
*
3242451 -AGAAGAAAGAAAAGGAG
1 AAGAAGAAAGGAAAGGAG
3242468 AAGAAAGAAAGGAAAGGAAG
1 AAG-AAGAAAGGAAAGG-AG
3242488 AAGAAGAA
1 AAGAAGAA
3242496 GGGCCCGTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
15 8 0.21
16 5 0.13
17 1 0.03
18 2 0.05
19 17 0.45
20 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (18 bp):
AAGAAGAAAGGAAAGGAG
Found at i:3242657 original size:10 final size:10
Alignment explanation
Indices: 3242642--3242670 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
3242632 TTGTTTGTTG
3242642 AATTATATTA
1 AATTATATTA
3242652 AATTATATTA
1 AATTATATTA
3242662 AATT-TATTA
1 AATTATATTA
3242671 TATGTCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
AATTATATTA
Found at i:3245285 original size:22 final size:22
Alignment explanation
Indices: 3245260--3245312 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
3245250 AACTTAAATA
*
3245260 TTAT-AATATTAAATTCGACTAT
1 TTATAAATA-TAAATTCGACTAG
3245282 TTATAAATATAAATTCGACTAG
1 TTATAAATATAAATTCGACTAG
3245304 TTATAAATA
1 TTATAAATA
3245313 GAAAAATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 25 0.86
23 4 0.14
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.42
Consensus pattern (22 bp):
TTATAAATATAAATTCGACTAG
Found at i:3245448 original size:11 final size:11
Alignment explanation
Indices: 3245434--3245588 Score: 91
Period size: 11 Copynumber: 13.2 Consensus size: 11
3245424 TATATTTAAA
*
3245434 TATTTAATCAT
1 TATTAAATCAT
*
3245445 TATTAAATAAT
1 TATTAAATCAT
3245456 TATTAGTAATCAT
1 TATTA--AATCAT
3245469 TATTAAATCAT
1 TATTAAATCAT
*
3245480 TATTAGTAATTAT
1 TATTA--AATCAT
*
3245493 TA-TAATTTCAT
1 TATTAA-ATCAT
3245504 TATTACTAATCAT
1 TATTA--AATCAT
* *
3245517 TACTAAATCGT
1 TATTAAATCAT
3245528 TAGTATCAAATCAT
1 TA-T-T-AAATCAT
* *
3245542 TA--AATATTAA
1 TATTAA-ATCAT
*
3245552 TAATAAATCAT
1 TATTAAATCAT
3245563 TATTAGTAATCAT
1 TATTA--AATCAT
3245576 TATTAAATCAT
1 TATTAAATCAT
3245587 TA
1 TA
3245589 AATATCAAAT
Statistics
Matches: 112, Mismatches: 16, Indels: 32
0.70 0.10 0.20
Matches are distributed among these distances:
9 2 0.02
10 6 0.05
11 52 0.46
12 6 0.05
13 37 0.33
14 9 0.08
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.45
Consensus pattern (11 bp):
TATTAAATCAT
Found at i:3245465 original size:24 final size:24
Alignment explanation
Indices: 3245438--3245588 Score: 118
Period size: 24 Copynumber: 6.4 Consensus size: 24
3245428 TTTAAATATT
*
3245438 TAATCATTATTAAATAATTATTAG
1 TAATCATTATTAAATCATTATTAG
3245462 TAATCATTATTAAATCATTATTAG
1 TAATCATTATTAAATCATTATTAG
* * *
3245486 TAATTATTA-TAATTTCATTATTAC
1 TAATCATTATTAA-ATCATTATTAG
* * *
3245510 TAATCATTACTAAATCGTTAGTA-
1 TAATCATTATTAAATCATTATTAG
* * *
3245533 TCAA--ATCATTAAAT-ATTAATAA
1 T-AATCATTATTAAATCATTATTAG
3245555 TAAATCATTATTAGTAATCATTATTA-
1 T-AATCATTATTA--AATCATTATTAG
3245581 -AATCATTA
1 TAATCATTA
3245589 AATATCAAAT
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
21 5 0.05
22 11 0.11
23 4 0.04
24 71 0.69
25 3 0.03
26 3 0.03
27 6 0.06
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (24 bp):
TAATCATTATTAAATCATTATTAG
Found at i:3245563 original size:59 final size:59
Alignment explanation
Indices: 3245500--3245618 Score: 186
Period size: 59 Copynumber: 2.0 Consensus size: 59
3245490 TATTATAATT
* *
3245500 TCATTATTACTAATCATTACTAAATCGTT-AGTATCAAATCATTAAATATTAATAATAAA
1 TCATTATTACTAATCATTACTAAATCATTAAATATCAAATCATTAAATATTAATAA-AAA
* *
3245559 TCATTATTAGTAATCATTATTAAATCATTAAATATCAAATCATTAAATATTAATAAAAA
1 TCATTATTACTAATCATTACTAAATCATTAAATATCAAATCATTAAATATTAATAAAAA
3245618 T
1 T
3245619 GAACTTAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 30 0.55
60 25 0.45
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.39
Consensus pattern (59 bp):
TCATTATTACTAATCATTACTAAATCATTAAATATCAAATCATTAAATATTAATAAAAA
Found at i:3245573 original size:13 final size:11
Alignment explanation
Indices: 3245555--3245588 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 11
3245545 ATATTAATAA
3245555 TAAATCATTAT
1 TAAATCATTAT
3245566 TAGTAATCATTAT
1 TA--AATCATTAT
3245579 TAAATCATTA
1 TAAATCATTA
3245589 AATATCAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 10 0.48
13 11 0.52
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (11 bp):
TAAATCATTAT
Found at i:3245600 original size:15 final size:15
Alignment explanation
Indices: 3245580--3245608 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3245570 AATCATTATT
3245580 AAATCATTAAATATC
1 AAATCATTAAATATC
3245595 AAATCATTAAATAT
1 AAATCATTAAATAT
3245609 TAATAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATCATTAAATATC
Found at i:3251371 original size:26 final size:26
Alignment explanation
Indices: 3251338--3251412 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 26
3251328 TATCCCTTCT
3251338 TTATTTCATTTCATTTCTTATCTTTA
1 TTATTTCATTTCATTTCTTATCTTTA
*
3251364 TTATTTCATTT-A-TTCTT-CCTTTA
1 TTATTTCATTTCATTTCTTATCTTTA
* *
3251387 TTA-ATCATCTTCCTTTTCTTATCTTT
1 TTATTTCAT-TT-CATTTCTTATCTTT
3251413 GTTGTAGCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
22 4 0.10
23 10 0.25
24 5 0.12
25 1 0.03
26 16 0.40
27 4 0.10
ACGTcount: A:0.17, C:0.19, G:0.00, T:0.64
Consensus pattern (26 bp):
TTATTTCATTTCATTTCTTATCTTTA
Found at i:3251669 original size:28 final size:28
Alignment explanation
Indices: 3251615--3251669 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
3251605 TTAGAGTGCA
*
3251615 AAAAGAAGAAAAAAATTCAGAAAAGAAG
1 AAAAGAAGAAAAAAATTCAAAAAAGAAG
*
3251643 AAAAGAA-AAAGAAATTCAAAAAGAGAA
1 AAAAGAAGAAAAAAATTCAAAAA-AGAA
3251670 AGCAAACCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.73, C:0.04, G:0.16, T:0.07
Consensus pattern (28 bp):
AAAAGAAGAAAAAAATTCAAAAAAGAAG
Found at i:3258038 original size:23 final size:23
Alignment explanation
Indices: 3258001--3258124 Score: 132
Period size: 23 Copynumber: 5.4 Consensus size: 23
3257991 CACCACAACT
*
3258001 CACATA-ATTTACACCGAAGTGC
1 CACATAGATTTGCACCGAAGTGC
*
3258023 CACATAGATTTGCACCAAAGTGC
1 CACATAGATTTGCACCGAAGTGC
3258046 CACATAGATTTGCACCGAAGTGC
1 CACATAGATTTGCACCGAAGTGC
**
3258069 CACATAGGTATTT--AATGAAGTGC
1 CACATA-G-ATTTGCACCGAAGTGC
*
3258092 CACATAGGTTTGTC-CCGAA-TGAC
1 CACATAGATTTG-CACCGAAGTG-C
3258115 CACATAGATT
1 CACATAGATT
3258125 GTCCCGAAGG
Statistics
Matches: 86, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
21 3 0.03
22 9 0.10
23 69 0.80
24 1 0.01
25 4 0.05
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (23 bp):
CACATAGATTTGCACCGAAGTGC
Found at i:3258129 original size:22 final size:23
Alignment explanation
Indices: 3258091--3258142 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
3258081 TAATGAAGTG
* *
3258091 CCACATAGGTTTGTCCCGAATGA
1 CCACATAGGATTGTCCCGAAGGA
3258114 CCACATA-GATTGTCCCGAAGGA
1 CCACATAGGATTGTCCCGAAGGA
3258136 CCACATA
1 CCACATA
3258143 AAACCCTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (23 bp):
CCACATAGGATTGTCCCGAAGGA
Found at i:3267004 original size:166 final size:166
Alignment explanation
Indices: 3266730--3267061 Score: 664
Period size: 166 Copynumber: 2.0 Consensus size: 166
3266720 AATGGGTGTT
3266730 ACAATCATCGTCCCCCCATGGAATAAGAAAAGACACTTTCAACTCTTCCTCAATAACACCACCTG
1 ACAATCATCGTCCCCCCATGGAATAAGAAAAGACACTTTCAACTCTTCCTCAATAACACCACCTG
3266795 AACCATCACAACATCCACCATCTCCACCGATTATGAGCACCACATGCTACATCCCAAGCCCACCT
66 AACCATCACAACATCCACCATCTCCACCGATTATGAGCACCACATGCTACATCCCAAGCCCACCT
3266860 ATTTACATGGGTACTCCATTGGTTCATATGCCATCA
131 ATTTACATGGGTACTCCATTGGTTCATATGCCATCA
3266896 ACAATCATCGTCCCCCCATGGAATAAGAAAAGACACTTTCAACTCTTCCTCAATAACACCACCTG
1 ACAATCATCGTCCCCCCATGGAATAAGAAAAGACACTTTCAACTCTTCCTCAATAACACCACCTG
3266961 AACCATCACAACATCCACCATCTCCACCGATTATGAGCACCACATGCTACATCCCAAGCCCACCT
66 AACCATCACAACATCCACCATCTCCACCGATTATGAGCACCACATGCTACATCCCAAGCCCACCT
3267026 ATTTACATGGGTACTCCATTGGTTCATATGCCATCA
131 ATTTACATGGGTACTCCATTGGTTCATATGCCATCA
3267062 CACCACGTTC
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
166 166 1.00
ACGTcount: A:0.32, C:0.35, G:0.10, T:0.23
Consensus pattern (166 bp):
ACAATCATCGTCCCCCCATGGAATAAGAAAAGACACTTTCAACTCTTCCTCAATAACACCACCTG
AACCATCACAACATCCACCATCTCCACCGATTATGAGCACCACATGCTACATCCCAAGCCCACCT
ATTTACATGGGTACTCCATTGGTTCATATGCCATCA
Found at i:3267699 original size:24 final size:22
Alignment explanation
Indices: 3267656--3267717 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 22
3267646 TTTAGGTTTT
*
3267656 TTTAAAAAAAAACCTAAACCAA
1 TTTAATAAAAAACCTAAACCAA
* *
3267678 TTTAATAAAAAACTCATGAACCAC
1 TTTAATAAAAAAC-C-TAAACCAA
3267702 TTTAATCTAAAAAACC
1 TTTAA--TAAAAAACC
3267718 CTAACCCTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 12 0.36
23 1 0.03
24 11 0.33
25 1 0.03
26 8 0.24
ACGTcount: A:0.55, C:0.19, G:0.02, T:0.24
Consensus pattern (22 bp):
TTTAATAAAAAACCTAAACCAA
Found at i:3267723 original size:24 final size:23
Alignment explanation
Indices: 3267656--3267721 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 23
3267646 TTTAGGTTTT
*
3267656 TTTAA-AAAAAAACCTAAACCAA
1 TTTAATAAAAAACCCTAAACCAA
* * *
3267678 TTTAATAAAAAACTCATGAACCAC
1 TTTAATAAAAAAC-CCTAAACCAA
3267702 TTTAATCTAAAAAACCCTAA
1 TTTAA--TAAAAAACCCTAA
3267722 CCCTAAACTA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
22 5 0.15
23 6 0.18
24 12 0.35
25 3 0.09
26 8 0.24
ACGTcount: A:0.55, C:0.20, G:0.02, T:0.24
Consensus pattern (23 bp):
TTTAATAAAAAACCCTAAACCAA
Found at i:3271609 original size:32 final size:31
Alignment explanation
Indices: 3271571--3271645 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 31
3271561 AGGCACAAAA
* *
3271571 ACAAATATAAAAAAAT-AT-ATAAATAA-AAT
1 ACAAAAATAAAAAGATAATAAT-AATAACAAT
3271600 ACATAAAATAAAGAAGATAATAATAATAACAAT
1 ACA-AAAATAAA-AAGATAATAATAATAACAAT
3271633 ACAAAAATAAAAA
1 ACAAAAATAAAAA
3271646 TAGAAGATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
29 3 0.08
30 7 0.18
31 6 0.15
32 15 0.38
33 8 0.21
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (31 bp):
ACAAAAATAAAAAGATAATAATAATAACAAT
Found at i:3271769 original size:2 final size:2
Alignment explanation
Indices: 3271762--3271831 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
3271752 AGAATTAAAG
3271762 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
3271804 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
3271832 ACGATAGAAT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3273444 original size:110 final size:111
Alignment explanation
Indices: 3273310--3273517 Score: 319
Period size: 111 Copynumber: 1.9 Consensus size: 111
3273300 GCTCTAGAAA
* * *
3273310 TTGTTTGTTGACAGTAAGCCGCCCCTTCGCTGTGAAGTTGAGC-TTGTGTTGTCTCGAGTTCAAT
1 TTGTTTGTTGACAATAAGCCGCCCCTTCACTGTGAAGTTGAGCTTTGTGTTGTCTCGAGTCCAAT
*
3273374 ATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAG
66 ATCACTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAG
* * * *
3273420 TTGTTTGTTGACAATCAGTCGCCCCTTCATTGTGAAGTTGAGCTTTGTGTTGTCTTGAGTCCAAT
1 TTGTTTGTTGACAATAAGCCGCCCCTTCACTGTGAAGTTGAGCTTTGTGTTGTCTCGAGTCCAAT
* *
3273485 ATCCCTCGCTGTGAAGTTGAAATTGGCTCTGAA
66 ATCACTCGCTGTGAAGTTGAAATTGACTCTGAA
3273518 ACTGGGAAGC
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
110 38 0.44
111 49 0.56
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (111 bp):
TTGTTTGTTGACAATAAGCCGCCCCTTCACTGTGAAGTTGAGCTTTGTGTTGTCTCGAGTCCAAT
ATCACTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAG
Found at i:3274496 original size:44 final size:44
Alignment explanation
Indices: 3274440--3274524 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 44
3274430 TCTTGAATTA
*
3274440 TCCAAATCGCCCTTT-CGGGTTTTCAACTTGGACCCATCCTTGGT
1 TCCAAATCGCCCTTTGCGGGTTTTCAACTTGAACCCA-CCTTGGT
*
3274484 TCCAAGAT-GCCCTTTGCGGGTTTTCATCTTGAACCCACCTT
1 TCCAA-ATCGCCCTTTGCGGGTTTTCAACTTGAACCCACCTT
3274525 ATTTTTTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
44 16 0.43
45 21 0.57
ACGTcount: A:0.16, C:0.32, G:0.18, T:0.34
Consensus pattern (44 bp):
TCCAAATCGCCCTTTGCGGGTTTTCAACTTGAACCCACCTTGGT
Found at i:3278488 original size:13 final size:13
Alignment explanation
Indices: 3278470--3278504 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
3278460 CGAGAGAAAG
3278470 GAAATGAAGTACC
1 GAAATGAAGTACC
3278483 GAAATGAAGTACC
1 GAAATGAAGTACC
3278496 GAAATGAAG
1 GAAATGAAG
3278505 AAGATAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.49, C:0.11, G:0.26, T:0.14
Consensus pattern (13 bp):
GAAATGAAGTACC
Found at i:3285443 original size:15 final size:15
Alignment explanation
Indices: 3285423--3285454 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3285413 ATACAAAAAT
*
3285423 AAAAATAGAAGATAA
1 AAAAATAAAAGATAA
3285438 AAAAATAAAAGATAA
1 AAAAATAAAAGATAA
3285453 AA
1 AA
3285455 TGAAGTATAT
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:0.78, C:0.00, G:0.09, T:0.12
Consensus pattern (15 bp):
AAAAATAAAAGATAA
Found at i:3285481 original size:16 final size:17
Alignment explanation
Indices: 3285460--3285522 Score: 66
Period size: 16 Copynumber: 3.9 Consensus size: 17
3285450 TAAAATGAAG
3285460 TATATA-AAATAATAAA
1 TATATATAAATAATAAA
3285476 TATATATAACAT-AT-AA
1 TATATATAA-ATAATAAA
3285492 T-TATAGT-AATAA-AAA
1 TATATA-TAAATAATAAA
3285507 TATATATAAATAATAA
1 TATATATAAATAATAA
3285523 TGATATATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 15
0.72 0.00 0.28
Matches are distributed among these distances:
14 2 0.05
15 10 0.26
16 19 0.49
17 6 0.15
18 2 0.05
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (17 bp):
TATATATAAATAATAAA
Found at i:3285520 original size:19 final size:19
Alignment explanation
Indices: 3285498--3285554 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
3285488 ATAATTATAG
3285498 TAATAAAAATATATATAAA
1 TAATAAAAATATATATAAA
** *
3285517 TAATAATGATATATGAAAAA
1 TAATAAAAATATAT-ATAAA
* *
3285537 GAATTAAAAGTATATATA
1 TAA-TAAAAATATATATA
3285555 TATATATATA
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
19 12 0.43
20 8 0.29
21 8 0.29
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (19 bp):
TAATAAAAATATATATAAA
Found at i:3285542 original size:48 final size:50
Alignment explanation
Indices: 3285460--3285565 Score: 114
Period size: 48 Copynumber: 2.2 Consensus size: 50
3285450 TAAAATGAAG
* * *
3285460 TATATA-AAATAATAAATATATATAACATATAATT-ATAGTA-ATAAAAA
1 TATATATAAATAATAAATATATATAACAAAGAATTAAAAGTATATAAAAA
* *
3285507 TATATATAAATAAT-AATGATATATGAA-AAAGAATTAAAAGTATATATATA
1 TATATATAAATAATAAAT-ATATAT-AACAAAGAATTAAAAGTATATAAAAA
3285557 TATATATAA
1 TATATATAA
3285566 CGATAGAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
47 9 0.18
48 19 0.39
49 7 0.14
50 14 0.29
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (50 bp):
TATATATAAATAATAAATATATATAACAAAGAATTAAAAGTATATAAAAA
Found at i:3286394 original size:23 final size:23
Alignment explanation
Indices: 3286367--3286415 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
3286357 CCCTAAATAT
3286367 AAGGTAAATTTATATTATTTTTC
1 AAGGTAAATTTATATTATTTTTC
3286390 AAGGTAAATTTATATTATTTTTC
1 AAGGTAAATTTATATTATTTTTC
3286413 AAG
1 AAG
3286416 TCATATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (23 bp):
AAGGTAAATTTATATTATTTTTC
Found at i:3297225 original size:22 final size:23
Alignment explanation
Indices: 3297201--3297243 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
3297191 TTTAAAAATA
*
3297201 AAAATAA-AAATG-AAAACTTTG
1 AAAATAAGAAAAGAAAAACTTTG
3297222 AAAATAAGAAAAGAAAAACTTT
1 AAAATAAGAAAAGAAAAACTTT
3297244 TATTTAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 8 0.42
ACGTcount: A:0.65, C:0.05, G:0.09, T:0.21
Consensus pattern (23 bp):
AAAATAAGAAAAGAAAAACTTTG
Found at i:3300186 original size:21 final size:22
Alignment explanation
Indices: 3300161--3300212 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
3300151 ACACTTTACA
*
3300161 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
3300184 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
3300207 ATATAA
1 ATATAA
3300213 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:3300197 original size:23 final size:23
Alignment explanation
Indices: 3300171--3300233 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
3300161 ATATAACCAC
3300171 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
3300194 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
3300217 TACCTATTACATCATAT
1 TACCTATTACATTATAT
3300234 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:3301150 original size:22 final size:23
Alignment explanation
Indices: 3301119--3301161 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
3301109 TTCCACAGTG
3301119 AAAAAAGTATAGACAC-TTTTAT
1 AAAAAAGTATAGACACATTTTAT
* *
3301141 AAAAAGGTATCGACACATTTT
1 AAAAAAGTATAGACACATTTT
3301162 TATACCGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.30
Consensus pattern (23 bp):
AAAAAAGTATAGACACATTTTAT
Found at i:3301465 original size:183 final size:183
Alignment explanation
Indices: 3301157--3301668 Score: 902
Period size: 183 Copynumber: 2.8 Consensus size: 183
3301147 GTATCGACAC
3301157 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
*
3301222 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGAACATAAAGTACCGACAC
66 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACAC
3301287 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
131 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
3301340 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
3301405 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACAC
66 TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACAC
*
3301470 AATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGT
131 AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
* *
3301523 ATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTTTTTT
1 ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATG---TGT
* * * *
3301588 CAA--TCGACACTTTTTTAAATGGTATCGACACATTTTTCTTTCATTCTGGACATAAAGTACAGA
63 AAATGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGA
*
3301651 CACAATATTAAAAAGTGT
128 CACAATATTAGAAAGTGT
3301669 GAAAACTTTG
Statistics
Matches: 317, Mismatches: 9, Indels: 5
0.96 0.03 0.02
Matches are distributed among these distances:
183 239 0.75
184 74 0.23
186 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (183 bp):
ATTTTTATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAA
TGTCGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACAC
AATATTAGAAAGTGTCGATAAAGGTTGTAGACCTATTCGCTCATAAAACCGGT
Found at i:3302876 original size:3 final size:3
Alignment explanation
Indices: 3302868--3302942 Score: 69
Period size: 3 Copynumber: 25.0 Consensus size: 3
3302858 ACTTGTTTGG
* * * * **
3302868 ATC ATC ATC TTC ATC ATC ATC ATC ATC GTC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
3302916 AGC TTC ATC GTC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
3302943 GTCAGCTTCA
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.24, C:0.35, G:0.07, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:3302885 original size:12 final size:12
Alignment explanation
Indices: 3302872--3302957 Score: 64
Period size: 12 Copynumber: 7.2 Consensus size: 12
3302862 GTTTGGATCA
* *
3302872 TCATCTTCATCA
1 TCATCATCATCT
*
3302884 TCATCATCATCG
1 TCATCATCATCT
*
3302896 TCGTCATCATCT
1 TCATCATCATCT
** *
3302908 TCATCGCCAGCT
1 TCATCATCATCT
* *
3302920 TCATCGTCATCA
1 TCATCATCATCT
*
3302932 TCATCATCATCG
1 TCATCATCATCT
* *
3302944 TCAGCTTCATCT
1 TCATCATCATCT
3302956 TC
1 TC
3302958 TGCGACCGCT
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 58 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCATCATCT
Found at i:3302943 original size:30 final size:30
Alignment explanation
Indices: 3302890--3302954 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
3302880 ATCATCATCA
* *
3302890 TCATCGTCGTCATCATCTTCATCGCCAGCT
1 TCATCGTCATCATCATCATCATCGCCAGCT
*
3302920 TCATCGTCATCATCATCATCATCGTCAGCT
1 TCATCGTCATCATCATCATCATCGCCAGCT
3302950 TCATC
1 TCATC
3302955 TTCTGCGACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.20, C:0.35, G:0.11, T:0.34
Consensus pattern (30 bp):
TCATCGTCATCATCATCATCATCGCCAGCT
Found at i:3304928 original size:198 final size:199
Alignment explanation
Indices: 3304413--3305582 Score: 2258
Period size: 199 Copynumber: 5.9 Consensus size: 199
3304403 TATTTAAATT
3304413 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3304478 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3304543 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
3304608 AAAA
196 AAAA
3304612 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3304677 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
*
3304742 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTG-TTTCCATTCATGCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
3304806 AAAA
196 AAAA
3304810 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3304875 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3304940 ATCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
3305003 AAAA
196 AAAA
3305007 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
*
3305072 TAATTGTACCGGTTAGATTGAAAAATTACATATTACTTTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3305137 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
3305202 AAAA
196 AAAA
3305206 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3305271 TAATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3305335 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
3305400 AAAA
196 AAAA
3305404 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3305469 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
* * *
3305534 ATTGACACTTTTTTATATATGGGTCGACACTTTATGGGTGCACCCTGTT
131 ATCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
3305583 GGCCATATTG
Statistics
Matches: 959, Mismatches: 7, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
196 32 0.03
197 162 0.17
198 360 0.38
199 367 0.38
200 38 0.04
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (199 bp):
AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
AAAA
Found at i:3305543 original size:594 final size:596
Alignment explanation
Indices: 3304413--3305582 Score: 2256
Period size: 594 Copynumber: 2.0 Consensus size: 596
3304403 TATTTAAATT
3304413 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
3304478 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3304543 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
3304608 AAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
196 AAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
3304673 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
261 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
3304738 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATGCTG
326 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATGCTG
3304803 GGAAAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAA
391 GGAAAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAA
3304868 ACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
456 ACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
*
3304933 TTTTGGGATCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCAT
521 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT
3304996 TCTGGGAAAAA
586 TCTGGGAAAAA
3305007 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
1 AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
*
3305072 TAATTGTACCGGTTAGATTGAAAAATTACATATTACTTTATACTTTTGGGTTCGATGATTTTGGG
66 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
3305137 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
131 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
3305202 AAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
196 AAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
3305267 GGTATAATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
261 GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
*
3305331 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCT
326 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTG-TTTCCATTCATGCT
3305396 GGGAAAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAA
390 GGGAAAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAA
3305461 AACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATG
455 AACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATG
* *
3305526 ATTTTGGGATTGACACTTTTTTATATATGGGTCGACACTTTATGGGTGCACCCTGTT
520 ATTTTGGGATCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
3305583 GGCCATATTG
Statistics
Matches: 567, Mismatches: 5, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
593 90 0.16
594 441 0.78
596 4 0.01
597 32 0.06
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (596 bp):
AGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGA
AAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
GGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTT
TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTCCATTCATGCTG
GGAAAAAAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAA
ACCGGTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA
TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT
TCTGGGAAAAA
Found at i:3305747 original size:19 final size:19
Alignment explanation
Indices: 3305701--3305749 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
3305691 TTATATTCAC
*
3305701 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
3305720 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
3305739 ATACAAAATTA
1 ATACAAAATTA
3305750 ACTCGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:3307579 original size:33 final size:33
Alignment explanation
Indices: 3307542--3307607 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
3307532 CATCTTAATA
*
3307542 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
3307575 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
3307608 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:3307681 original size:21 final size:21
Alignment explanation
Indices: 3307641--3307705 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
3307631 CCCCTTATTC
* *
3307641 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
3307662 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
3307683 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
3307704 CT
1 CT
3307706 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:3309949 original size:17 final size:18
Alignment explanation
Indices: 3309927--3309969 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
3309917 ATATATCCGG
3309927 TATCATT-TTACCGGTTT
1 TATCATTGTTACCGGTTT
3309944 TATCATTTTGTTACCGGTTT
1 TATCA--TTGTTACCGGTTT
3309964 TATCAT
1 TATCAT
3309970 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.22
18 1 0.04
19 2 0.09
20 15 0.65
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (18 bp):
TATCATTGTTACCGGTTT
Found at i:3309959 original size:20 final size:20
Alignment explanation
Indices: 3309932--3309978 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
3309922 TCCGGTATCA
3309932 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
3309951 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
3309972 TTTTACC
1 TTTTACC
3309979 TGTTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:3311384 original size:182 final size:182
Alignment explanation
Indices: 3311077--3311438 Score: 688
Period size: 182 Copynumber: 2.0 Consensus size: 182
3311067 ATAAGGGGGG
3311077 GGGGGCGGGGGGTTTGGATTATGTTAACTTGCGTCGCCTCCTGTCTCTAAATGTTATCCCTAAAT
1 GGGGGCGGGGGGTTTGGATTATGTTAACTTGCGTCGCCTCCTGTCTCTAAATGTTATCCCTAAAT
*
3311142 ATGAAACACTGCTCCTATGTCTGGACATTCGATTGAAATTTGAATATGTTTAAAGAAAAAACAAA
66 ATGAAACACTGCTCCTATGTCTGGACATTCGATTGAAATTTGAATATGTTCAAAGAAAAAACAAA
3311207 ATAAAATAAACTAAGCATTTGATAAACTAAAATAAAAATAAAATGAAATGGC
131 ATAAAATAAACTAAGCATTTGATAAACTAAAATAAAAATAAAATGAAATGGC
* *
3311259 GGGGGCGGTGGGTTTGGATTATGTTAACTTGCGTCGCCTCCTGTCTCTAAATGTTGTCCCTAAAT
1 GGGGGCGGGGGGTTTGGATTATGTTAACTTGCGTCGCCTCCTGTCTCTAAATGTTATCCCTAAAT
*
3311324 ATGAAACACTTCTCCTATGTCTGGACATTCGATTGAAATTTGAATATGTTCAAAGAAAAAACAAA
66 ATGAAACACTGCTCCTATGTCTGGACATTCGATTGAAATTTGAATATGTTCAAAGAAAAAACAAA
3311389 ATAAAATAAACTAAGCATTTGATAAACTAAAATAAAAATAAAATGAAATG
131 ATAAAATAAACTAAGCATTTGATAAACTAAAATAAAAATAAAATGAAATG
3311439 AATTTAAATG
Statistics
Matches: 176, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
182 176 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (182 bp):
GGGGGCGGGGGGTTTGGATTATGTTAACTTGCGTCGCCTCCTGTCTCTAAATGTTATCCCTAAAT
ATGAAACACTGCTCCTATGTCTGGACATTCGATTGAAATTTGAATATGTTCAAAGAAAAAACAAA
ATAAAATAAACTAAGCATTTGATAAACTAAAATAAAAATAAAATGAAATGGC
Found at i:3312425 original size:18 final size:18
Alignment explanation
Indices: 3312402--3312441 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
3312392 AATCCGGAAA
3312402 GCTCTTTTCGACGCGCAC
1 GCTCTTTTCGACGCGCAC
*
3312420 GCTCTTTTTGACGCGCAC
1 GCTCTTTTCGACGCGCAC
3312438 GCTC
1 GCTC
3312442 CATGTGGCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.38, G:0.23, T:0.30
Consensus pattern (18 bp):
GCTCTTTTCGACGCGCAC
Found at i:3312671 original size:36 final size:36
Alignment explanation
Indices: 3312630--3312705 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
3312620 ATTTTCGGGA
*
3312630 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
3312666 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
3312702 TTTT
1 TTTT
3312706 TTAGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:3313239 original size:20 final size:20
Alignment explanation
Indices: 3313214--3313263 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
3313204 TTTCCATAAT
*
3313214 CGCAACGCGAATATGA-AAAG
1 CGCAACGCGAACAT-ATAAAG
*
3313234 CGCAACGCGAACATATAAAT
1 CGCAACGCGAACATATAAAG
3313254 CGCAACGCGA
1 CGCAACGCGA
3313264 TTCTGACTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.42, C:0.26, G:0.22, T:0.10
Consensus pattern (20 bp):
CGCAACGCGAACATATAAAG
Found at i:3313316 original size:20 final size:20
Alignment explanation
Indices: 3313272--3313424 Score: 146
Period size: 20 Copynumber: 7.5 Consensus size: 20
3313262 GATTCTGACT
*
3313272 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGCGTATCCGT-AA
3313293 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * * *
3313313 ATCGTAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
* * **
3313333 ATCGCAACGAGAATATGTAA
1 ATCGCAACGCGTATCCGTAA
**
3313353 ATCGCAATACGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* *
3313373 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
*
3313394 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
3313414 ATCGCAACGCG
1 ATCGCAACGCG
3313425 ATTTTTAAAG
Statistics
Matches: 108, Mismatches: 21, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
20 75 0.69
21 33 0.31
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:3313322 original size:41 final size:40
Alignment explanation
Indices: 3313272--3313425 Score: 168
Period size: 40 Copynumber: 3.8 Consensus size: 40
3313262 GATTCTGACT
* *
3313272 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGTATCCGT-AAATCGCAACGCGAATACGTAA
* * * * *
3313313 ATCGTAACGAGAATACGTAAATCGCAACGAGAATATGTAA
1 ATCGCAACGAGTATCCGTAAATCGCAACGCGAATACGTAA
*
3313353 ATCGCAA-TACGTATCCGTAAATCGCAACGAC-AATACGTAAA
1 ATCGCAACGA-GTATCCGTAAATCGCAACG-CGAATACGT-AA
* *
3313394 ATCGCAATGCGTATCCGTAAATCGCAACGCGA
1 ATCGCAACGAGTATCCGTAAATCGCAACGCGA
3313426 TTTTTAAAGC
Statistics
Matches: 93, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
39 1 0.01
40 48 0.52
41 44 0.47
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (40 bp):
ATCGCAACGAGTATCCGTAAATCGCAACGCGAATACGTAA
Found at i:3313354 original size:101 final size:101
Alignment explanation
Indices: 3313211--3313422 Score: 248
Period size: 101 Copynumber: 2.1 Consensus size: 101
3313201 GATTTTCCAT
* * * * * *
3313211 AATCGCAACGCGAATATGAAAAGCGCAACGCGAACATATAAATCGCAACGCG-ATTC-TGACTAT
1 AATCGCAACGAGAATACGAAAAGCGCAACGAGAACATATAAATCGCAACACGTATCCGT-A-AAT
** *
3313274 CGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTA
64 CGCAACGACAATACGTAAAATCGCAACGCGTATCCGTA
* * * * * *
3313312 AATCGTAACGAGAATACGTAAATCGCAACGAGAATATGTAAATCGCAATACGTATCCGTAAATCG
1 AATCGCAACGAGAATACGAAAAGCGCAACGAGAACATATAAATCGCAACACGTATCCGTAAATCG
*
3313377 CAACGACAATACGTAAAATCGCAATGCGTATCCGTA
66 CAACGACAATACGTAAAATCGCAACGCGTATCCGTA
3313413 AATCGCAACG
1 AATCGCAACG
3313423 CGATTTTTAA
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
101 87 0.95
102 4 0.04
103 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (101 bp):
AATCGCAACGAGAATACGAAAAGCGCAACGAGAACATATAAATCGCAACACGTATCCGTAAATCG
CAACGACAATACGTAAAATCGCAACGCGTATCCGTA
Found at i:3313375 original size:60 final size:62
Alignment explanation
Indices: 3313272--3313400 Score: 181
Period size: 60 Copynumber: 2.1 Consensus size: 62
3313262 GATTCTGACT
* * * * *
3313272 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAAATCGTAACGAGAATACGT-AA
1 ATCGCAACGAGAATACGTAAAATCGCAACACGTATCCGTAAATCGCAACGACAATACGTAAA
* *
3313333 ATCGCAACGAGAATATGT-AAATCGCAATACGTATCCGTAAATCGCAACGACAATACGTAAA
1 ATCGCAACGAGAATACGTAAAATCGCAACACGTATCCGTAAATCGCAACGACAATACGTAAA
3313394 ATCGCAA
1 ATCGCAA
3313401 TGCGTATCCG
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
60 36 0.60
61 24 0.40
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.19
Consensus pattern (62 bp):
ATCGCAACGAGAATACGTAAAATCGCAACACGTATCCGTAAATCGCAACGACAATACGTAAA
Found at i:3313985 original size:20 final size:19
Alignment explanation
Indices: 3313960--3314032 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 19
3313950 TTCTAAACTT
3313960 AAAATCGCAACATGAAAATG
1 AAAATCGCAACA-GAAAATG
3313980 AAAATCGCAACACGAAAATG
1 AAAATCGCAACA-GAAAATG
**
3314000 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAAC-AGA-AAATG
3314021 AAAATCGCAACA
1 AAAATCGCAACA
3314033 AGAGAATCGC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 31 0.67
21 15 0.33
ACGTcount: A:0.52, C:0.19, G:0.16, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACAGAAAATG
Found at i:3314054 original size:33 final size:33
Alignment explanation
Indices: 3314015--3314095 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 33
3314005 CGCAACGAGA
**
3314015 GAAATGAAAATCGCAACAAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACAAGAGAATCGCAACAC
* * *
3314048 GAAATGAAAATAGCAACGAGATAATCGCAACAC
1 GAAATGAAAATCGCAACAAGAGAATCGCAACAC
**
3314081 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
3314096 TTGCGATTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.51, C:0.20, G:0.19, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACAAGAGAATCGCAACAC
Found at i:3314113 original size:19 final size:19
Alignment explanation
Indices: 3314091--3314250 Score: 116
Period size: 19 Copynumber: 9.1 Consensus size: 19
3314081 GAAACCAAAA
*
3314091 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3314110 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
3314124 TCTCGTTGTGATTTTAATT
1 TCGCGTTGCGATTTTCATT
3314143 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
3314157 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3314176 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
3314190 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
3314209 TCTGCGTTGCGATTTTCATT
1 TC-GCGTTGCGATTTTCATT
*
3314229 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
3314249 TC
1 TC
3314251 AACCAAAAGA
Statistics
Matches: 109, Mismatches: 15, Indels: 34
0.69 0.09 0.22
Matches are distributed among these distances:
14 29 0.27
16 7 0.06
17 8 0.07
19 33 0.30
20 30 0.28
21 2 0.02
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:3314144 original size:33 final size:33
Alignment explanation
Indices: 3314096--3314250 Score: 211
Period size: 33 Copynumber: 4.5 Consensus size: 33
3314086 CAAAATCGCA
3314096 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
3314129 TTGTGATTTTAATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
3314162 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
**
3314195 TTGCGATAGTCATTTCTGCGTTGCGATTTTCATTCTCTCG
1 TTGCGATTTTCATTTC-GCGTTGCG------ATTCTCTCG
3314235 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
3314251 AACCAAAAGA
Statistics
Matches: 107, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
33 76 0.71
34 8 0.07
40 23 0.21
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:3314165 original size:14 final size:14
Alignment explanation
Indices: 3314146--3314201 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
3314136 TTTAATTTCG
3314146 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
3314160 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
3314179 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
3314193 CGTTGCGAT
1 CGTTGCGAT
3314202 AGTCATTTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 19 0.54
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:3314242 original size:20 final size:20
Alignment explanation
Indices: 3314153--3314248 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
3314143 TCGCGTTGCG
3314153 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
3314173 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
**
3314186 ATTCTCTCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATTTTC
3314206 ATT-TCTGCGTTGCGATTTTC
1 ATTCTCT-CGTTGCGATTTTC
3314226 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
3314246 ATT
1 ATT
3314249 TCAACCAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
13 3 0.05
14 9 0.14
19 12 0.19
20 36 0.57
21 3 0.05
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.47
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:3316296 original size:21 final size:21
Alignment explanation
Indices: 3316272--3316338 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
3316262 TCATTCCTCG
3316272 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
3316293 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
3316314 AGAGAT-CCCTCCCACCATTCA
1 AGAG-TCCCCTCCCACCGTTCA
3316335 AGAG
1 AGAG
3316339 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.36, G:0.19, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:3316296 original size:42 final size:42
Alignment explanation
Indices: 3316220--3316338 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
3316210 GACTCGCCTG
* * * * * * *
3316220 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
3316262 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
3316304 TCA-TCGTTGAAGAGAT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGAG-TCCCCTCCCACCGTTCAAGAG
3316339 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 59 0.92
43 1 0.02
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Done.