Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 15 of 127
Found at i:3566105 original size:33 final size:29
Alignment explanation
Indices: 3566037--3566105 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 29
3566027 AATTATTTAA
*
3566037 TAATTATAATTTAATTATAAAATAATAGT
1 TAATTATAAATTAATTATAAAATAATAGT
3566066 TAATTATACAATTAATTATATAAGTATAATAGT
1 TAATTATA-AATTAATTATA-AA--ATAATAGT
*
3566099 TGATTAT
1 TAATTAT
3566106 TAATGTAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 8 0.24
30 10 0.29
31 2 0.06
33 14 0.41
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.45
Consensus pattern (29 bp):
TAATTATAAATTAATTATAAAATAATAGT
Found at i:3570138 original size:18 final size:18
Alignment explanation
Indices: 3570096--3570141 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
3570086 GTGATGACAC
* * *
3570096 CAGTGAAACTGTTGAGAG
1 CAGTGAAACTGCTGAAAA
*
3570114 CAATGAAACTGCTGAAAA
1 CAGTGAAACTGCTGAAAA
3570132 CAGTGAAACT
1 CAGTGAAACT
3570142 ACGGAGACCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (18 bp):
CAGTGAAACTGCTGAAAA
Found at i:3573084 original size:22 final size:20
Alignment explanation
Indices: 3573044--3573086 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
3573034 ATTTAATTTG
3573044 ATTAATTTATTAATCATTGA
1 ATTAATTTATTAATCATTGA
*
3573064 ATTAATTTCGATTAATTATTGA
1 ATTAATTT--ATTAATCATTGA
3573086 A
1 A
3573087 AATAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
22 12 0.60
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.49
Consensus pattern (20 bp):
ATTAATTTATTAATCATTGA
Found at i:3573457 original size:20 final size:20
Alignment explanation
Indices: 3573420--3573458 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3573410 ATTAAATAAT
* *
3573420 TAATTTAATTTAATTTTAAA
1 TAATTTAATTCAAATTTAAA
3573440 TAATTTAATTCAAATTTAA
1 TAATTTAATTCAAATTTAA
3573459 TCAAACGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
TAATTTAATTCAAATTTAAA
Found at i:3574019 original size:10 final size:9
Alignment explanation
Indices: 3573999--3574058 Score: 50
Period size: 10 Copynumber: 6.4 Consensus size: 9
3573989 GTGTTTATTT
*
3573999 TATATTAAA
1 TATATAAAA
3574008 TATATATAAA
1 TATATA-AAA
*
3574018 TATA-AAAT
1 TATATAAAA
3574026 TATATAATAA
1 TATATAA-AA
* *
3574036 TTTATATTAA
1 TATATA-AAA
3574046 TATATAAAA
1 TATATAAAA
3574055 TATA
1 TATA
3574059 AAATTTATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
8 6 0.15
9 14 0.35
10 20 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
TATATAAAA
Found at i:3574027 original size:22 final size:21
Alignment explanation
Indices: 3574006--3574063 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
3573996 TTTTATATTA
3574006 AATATATATAAATATAAAATT
1 AATATATATAAATATAAAATT
* *
3574027 -ATATA-AT-AAT-TTATATT
1 AATATATATAAATATAAAATT
3574044 AATATATA-AAATATAAAATT
1 AATATATATAAATATAAAATT
3574064 TATTTTTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 9
0.69 0.10 0.21
Matches are distributed among these distances:
17 5 0.17
18 8 0.28
19 6 0.21
20 10 0.34
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATATATATAAATATAAAATT
Found at i:3574029 original size:16 final size:17
Alignment explanation
Indices: 3574000--3574062 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
3573990 TGTTTATTTT
*
3574000 ATATTAAATATATATAA
1 ATATAAAATATATATAA
3574017 ATATAAAATTATATAATAA
1 ATATAAAA-TATAT-ATAA
* *
3574036 TTTATATTAATATATA-AA
1 -ATATA-AAATATATATAA
3574054 ATATAAAAT
1 ATATAAAAT
3574063 TTATTTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
16 3 0.08
17 11 0.30
18 7 0.19
19 5 0.14
20 9 0.24
21 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAAAATATATATAA
Found at i:3574116 original size:22 final size:22
Alignment explanation
Indices: 3574072--3574117 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
3574062 TTTATTTTTT
* *
3574072 ATTTTTATCAAATTTATATATA
1 ATTTTTATAAAATTTATAAATA
3574094 ATTTTTATTAAAATTT-TAAATA
1 ATTTTTA-TAAAATTTATAAATA
3574116 AT
1 AT
3574118 ATAATTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTTTTATAAAATTTATAAATA
Found at i:3579897 original size:21 final size:21
Alignment explanation
Indices: 3579873--3579912 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3579863 TTTTAAATAT
* *
3579873 AATAAAATGATAGAATAAAAA
1 AATAAAATGAAAAAATAAAAA
*
3579894 AATAATATGAAAAAATAAA
1 AATAAAATGAAAAAATAAA
3579913 GTTTAAAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.20
Consensus pattern (21 bp):
AATAAAATGAAAAAATAAAAA
Found at i:3582354 original size:13 final size:12
Alignment explanation
Indices: 3582317--3582364 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
3582307 GATATTCTAA
3582317 TTTAGCTTTTTTT
1 TTTA-CTTTTTTT
**
3582330 TTTAAATTTTTT
1 TTTACTTTTTTT
3582342 TTTACTTTATTTT
1 TTTACTTT-TTTT
*
3582355 TTTTCTTTTT
1 TTTACTTTTT
3582365 AACTTTCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
12 14 0.48
13 15 0.52
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTACTTTTTTT
Found at i:3583474 original size:23 final size:23
Alignment explanation
Indices: 3583448--3583491 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3583438 AATTGTAAAA
*
3583448 ATTAAATCTTAAATCTTAAAATT
1 ATTAAATATTAAATCTTAAAATT
* *
3583471 ATTAAATATTATATTTTAAAA
1 ATTAAATATTAAATCTTAAAA
3583492 ATAATTATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (23 bp):
ATTAAATATTAAATCTTAAAATT
Found at i:3588295 original size:18 final size:18
Alignment explanation
Indices: 3588264--3588332 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 18
3588254 ATTTATATTT
3588264 TAAATAATTATATTTGAATA
1 TAAATAA-T-TATTTGAATA
*
3588284 AAAATAATTA-TT-ATATGA
1 TAAATAATTATTTGA-AT-A
*
3588302 TAAATAGTTATTTGAATA
1 TAAATAATTATTTGAATA
3588320 TAAATAAATTATT
1 TAAAT-AATTATT
3588333 ATTTATAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
16 1 0.03
17 4 0.10
18 17 0.43
19 11 0.28
20 7 0.17
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (18 bp):
TAAATAATTATTTGAATA
Found at i:3588304 original size:20 final size:20
Alignment explanation
Indices: 3588265--3588305 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
3588255 TTTATATTTT
*
3588265 AAATAATTATATTTGAATAA
1 AAATAATTATATATGAATAA
3588285 AAATAATTATTATATG-ATAA
1 AAATAATTA-TATATGAATAA
3588305 A
1 A
3588306 TAGTTATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
AAATAATTATATATGAATAA
Found at i:3588529 original size:19 final size:19
Alignment explanation
Indices: 3588491--3588526 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
3588481 AAAGCCAAAA
*
3588491 TTCTTTTATATTATTTTTC
1 TTCTCTTATATTATTTTTC
3588510 TTCTCTTAT-TTATTTTT
1 TTCTCTTATATTATTTTT
3588527 TCTAATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (19 bp):
TTCTCTTATATTATTTTTC
Found at i:3592778 original size:39 final size:39
Alignment explanation
Indices: 3592735--3592813 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
3592725 TAAAAACTTA
* *
3592735 AAAGAAAAATATATGAATTGATCTACCATCAAAAGAATT
1 AAAGAAAAAGACATGAATTGATCTACCATCAAAAGAATT
*
3592774 AAAGAGAAAGACATGAATTGATCTACCATCAAAAGAATT
1 AAAGAAAAAGACATGAATTGATCTACCATCAAAAGAATT
3592813 A
1 A
3592814 TCACTTATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.53, C:0.11, G:0.13, T:0.23
Consensus pattern (39 bp):
AAAGAAAAAGACATGAATTGATCTACCATCAAAAGAATT
Found at i:3595818 original size:20 final size:20
Alignment explanation
Indices: 3595795--3595834 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3595785 TAGAAACTCC
* *
3595795 ACCTATATAAATATAGAAGT
1 ACCTATAAAAACATAGAAGT
3595815 ACCTATAAAAACATAGAAGT
1 ACCTATAAAAACATAGAAGT
3595835 GATGCCACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.25
Consensus pattern (20 bp):
ACCTATAAAAACATAGAAGT
Found at i:3601417 original size:24 final size:24
Alignment explanation
Indices: 3601390--3601442 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
3601380 ATTTAAAGTT
3601390 TTTAAAAT-TAATTTATTATAATTA
1 TTTAAAATATAATTTA-TATAATTA
* *
3601414 TTTAACATATCATTTATATAATTA
1 TTTAAAATATAATTTATATAATTA
3601438 TTTAA
1 TTTAA
3601443 TAGATATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
TTTAAAATATAATTTATATAATTA
Found at i:3601459 original size:22 final size:24
Alignment explanation
Indices: 3601407--3601459 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
3601397 TTAATTTATT
* *
3601407 ATAATTATTTAACATATCATTTAT
1 ATAATTATTTAACAGATCATTTAA
*
3601431 ATAATTATTTAATAGAT-A-TTAA
1 ATAATTATTTAACAGATCATTTAA
3601453 ATAATTA
1 ATAATTA
3601460 AATAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 10 0.38
23 1 0.04
24 15 0.58
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (24 bp):
ATAATTATTTAACAGATCATTTAA
Found at i:3603523 original size:23 final size:24
Alignment explanation
Indices: 3603478--3603523 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
3603468 AATAAATTTT
3603478 ATTATTATATTAATAATTAAAAAC
1 ATTATTATATTAATAATTAAAAAC
* *
3603502 ATTATTAT-TTTATAATTTAAAA
1 ATTATTATATTAATAATTAAAAA
3603524 TTTTTTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
ATTATTATATTAATAATTAAAAAC
Found at i:3603641 original size:24 final size:27
Alignment explanation
Indices: 3603609--3603660 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
3603599 TTTGCATTGA
*
3603609 AAATATATC-TT-T-ATTATTAATTTT
1 AAATATATCATTATAATAATTAATTTT
*
3603633 AAATTTATCATTATAATAATTAATTTT
1 AAATATATCATTATAATAATTAATTTT
3603660 A
1 A
3603661 TTATTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 8 0.35
25 2 0.09
26 1 0.04
27 12 0.52
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (27 bp):
AAATATATCATTATAATAATTAATTTT
Found at i:3603677 original size:21 final size:21
Alignment explanation
Indices: 3603631--3603677 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
3603621 ATTATTAATT
*
3603631 TTAAATTTATCATTATAATAA
1 TTAATTTTATCATTATAATAA
*
3603652 TTAATTTTATTATTATAATAA
1 TTAATTTTATCATTATAATAA
3603673 TTAAT
1 TTAAT
3603678 CTCATATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TTAATTTTATCATTATAATAA
Found at i:3603688 original size:24 final size:21
Alignment explanation
Indices: 3603634--3603691 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
3603624 ATTAATTTTA
*
3603634 AATT-TATCATTATAATAATT
1 AATTATATTATTATAATAATT
*
3603654 AATTTTATTATTATAATAATT
1 AATTATATTATTATAATAATT
3603675 AATCTCATATTTATTAT
1 AAT-T-ATA-TTATTAT
3603692 TATTTTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 4 0.12
21 18 0.56
22 1 0.03
23 2 0.06
24 7 0.22
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
AATTATATTATTATAATAATT
Found at i:3605013 original size:3 final size:3
Alignment explanation
Indices: 3605005--3605032 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
3604995 AGATAGGGTT
3605005 GGA GGA GGA GGA GGA GGA GGA GGA GGA G
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA G
3605033 CAGAAGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:3610925 original size:92 final size:92
Alignment explanation
Indices: 3610768--3610953 Score: 336
Period size: 92 Copynumber: 2.0 Consensus size: 92
3610758 TAGTTGCTGA
3610768 TAATTTACATAAATTTATTCTCCTTTCAATTTAAATGACATGAGTTTAGCACTTAATAAAGTAAT
1 TAATTTACATAAATTTATTCTCCTTTCAATTTAAATGACATGAGTTTAGCACTTAATAAAGTAAT
*
3610833 ACTCCTTATCCCATAAGAAATTAAACT
66 ACTCCTTATACCATAAGAAATTAAACT
* *
3610860 TAATTTACATAAATTTATTCTCCTTTCCATTTAAATGACATGAGTTTAGCGCTTAATAAAGTAAT
1 TAATTTACATAAATTTATTCTCCTTTCAATTTAAATGACATGAGTTTAGCACTTAATAAAGTAAT
*
3610925 ACTCCTTATACCATAGGAAATTAAACT
66 ACTCCTTATACCATAAGAAATTAAACT
3610952 TA
1 TA
3610954 GTATAAAACA
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (92 bp):
TAATTTACATAAATTTATTCTCCTTTCAATTTAAATGACATGAGTTTAGCACTTAATAAAGTAAT
ACTCCTTATACCATAAGAAATTAAACT
Found at i:3615586 original size:22 final size:22
Alignment explanation
Indices: 3615561--3615603 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
3615551 TGAATTTTTA
3615561 AAAT-TTAATATGAATTCGAATC
1 AAATCTTAATAT-AATTCGAATC
* *
3615583 AAATCTTTATATAATTTGAAT
1 AAATCTTAATATAATTCGAAT
3615604 TGAATTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (22 bp):
AAATCTTAATATAATTCGAATC
Found at i:3615770 original size:19 final size:20
Alignment explanation
Indices: 3615746--3615784 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
3615736 ATTTTTATTT
*
3615746 TATAAAAATTTA-AAATATA
1 TATAAAAATTAAGAAATATA
3615765 TATAAAAATTAAGAAATATA
1 TATAAAAATTAAGAAATATA
3615785 GGTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
TATAAAAATTAAGAAATATA
Found at i:3619924 original size:255 final size:254
Alignment explanation
Indices: 3619430--3619929 Score: 684
Period size: 255 Copynumber: 2.0 Consensus size: 254
3619420 GCCGCTCTAC
* * *
3619430 TTCTGTTGATCCATTCCTCAAGTCTGAAGAATTGGCAACTTAGCTGGATTAGATTCTGGGCGTTG
1 TTCTGATGATCCATTCCTCAAGTCTGAAGAATTGGCAACTCAGCTGGATTAGATTCTGGGCCTTG
* * * * *
3619495 TTGGAAGGCATTATGTATATCCTCCAGAGATCTTGCCTCTACAACAGGTGATTTTGAATGTGTAT
66 TTGGAAGGCATCATGTATATCCTCCAGAGATCTTCCCTCAACAACAGGTAATCTTGAATGTGTAT
* * * * *
3619560 CGACATGATCCTGCTGGTTCTCATGCATACTTGGAATAATTACTTCCTCAGCATCTACTCCTTTA
131 CGACATGATCCTGCAGATTCTCATGCATACTTGGAAGAATTACTTCCTCAACATCTACTCCTTCA
* *** *
3619625 TGACGTTGCTTAAAAGCCAAATTGGTATCTTCAACCGGTCTTGCTTCAAGCTGCTTTAT
196 TGAAGTTGCTTAAAAGCCAAATCAATATCTTCAACCGATCTTGCTTCAAGCTGCTTTAT
* * * * *
3619684 TTCTGATGATTCATTCCTTAAGTCTGAATAATGTGGCAGCTCAGCTGGATTAGATTCTTGGCCTT
1 TTCTGATGATCCATTCCTCAAGTCTGAAGAAT-TGGCAACTCAGCTGGATTAGATTCTGGGCCTT
3619749 GTTGGCAA-GCATCATGTATATCCTCCAGAGATCTTCCCTCAACAACAGGTAATCTTGAAT-TGG
65 GTTGG-AAGGCATCATGTATATCCTCCAGAGATCTTCCCTCAACAACAGGTAATCTTGAATGT-G
*
3619812 TATCTG-TATGATCCTGCAGATTCTCAAT-CATACTTGGAAGAATTACTTCCTCAACATCTACTC
128 TATC-GACATGATCCTGCAGATTCTC-ATGCATACTTGGAAGAATTACTTCCTCAACATCTACTC
* * *
3619875 CTTCATGAAGTTGCTTGAAAGCCAAATCAATATCTTCTACTGATCTTGCTTCAAG
191 CTTCATGAAGTTGCTTAAAAGCCAAATCAATATCTTCAACCGATCTTGCTTCAAG
3619930 AACAGGCAGC
Statistics
Matches: 214, Mismatches: 27, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
254 29 0.14
255 180 0.84
256 5 0.02
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (254 bp):
TTCTGATGATCCATTCCTCAAGTCTGAAGAATTGGCAACTCAGCTGGATTAGATTCTGGGCCTTG
TTGGAAGGCATCATGTATATCCTCCAGAGATCTTCCCTCAACAACAGGTAATCTTGAATGTGTAT
CGACATGATCCTGCAGATTCTCATGCATACTTGGAAGAATTACTTCCTCAACATCTACTCCTTCA
TGAAGTTGCTTAAAAGCCAAATCAATATCTTCAACCGATCTTGCTTCAAGCTGCTTTAT
Found at i:3622731 original size:156 final size:157
Alignment explanation
Indices: 3622432--3622723 Score: 437
Period size: 156 Copynumber: 1.9 Consensus size: 157
3622422 TTCTGGGATG
** * * *
3622432 AATTTCACTTGCATTGCTTTCCACATGAAGTAGTTGCTTTCAGCTTCAGACAAATTTGATTTCAT
1 AATTTCACTTGCATTGAGTTCCACATGAAGCAGTTGCTTCCAGCTTCAGACAAATTTGATTCCAT
* * * ** *
3622497 TTCCAGCTGACTTTCTCATCTCTGATGTGATCTCAACCAAATCAATGATGAACATCTCTATTCTC
66 TTCCAACCGACTTTCTCATCTCTAATACGATCTCAACCAAATCAATGATGAACATCTCTATTATC
3622562 GGCTTGGCCAACATGAGATGTTGGTAC
131 GGCTTGGCCAACATGAGATGTTGGTAC
3622589 AATTTCACTTGCATTGAGTTCCACATG-AGCAGTTGC-TCCAGCTTCAGACAAATTTGATTCCAT
1 AATTTCACTTGCATTGAGTTCCACATGAAGCAGTTGCTTCCAGCTTCAGACAAATTTGATTCCAT
*
3622652 TTCCAACCGACTTTCTTCATCTCTCAATACGATCTCAACCACATC-ATGATGAACATCTCTATTA
66 TTCCAACCGACTTTC-TCATCTCT-AATACGATCTCAACCAAATCAATGATGAACATCTCTATTA
3622716 TCGGCTTG
129 TCGGCTTG
3622724 TTCAACATCC
Statistics
Matches: 121, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
155 38 0.31
156 42 0.35
157 41 0.34
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (157 bp):
AATTTCACTTGCATTGAGTTCCACATGAAGCAGTTGCTTCCAGCTTCAGACAAATTTGATTCCAT
TTCCAACCGACTTTCTCATCTCTAATACGATCTCAACCAAATCAATGATGAACATCTCTATTATC
GGCTTGGCCAACATGAGATGTTGGTAC
Found at i:3625048 original size:18 final size:20
Alignment explanation
Indices: 3625025--3625061 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
3625015 AAATGTAATC
3625025 CTCTGT-TTTTCT-TTTCTG
1 CTCTGTGTTTTCTCTTTCTG
3625043 CTCTGTGTTTTCTCTTTCT
1 CTCTGTGTTTTCTCTTTCT
3625062 TTTTGCTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.00, C:0.24, G:0.11, T:0.65
Consensus pattern (20 bp):
CTCTGTGTTTTCTCTTTCTG
Found at i:3629356 original size:3 final size:3
Alignment explanation
Indices: 3629336--3629382 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
3629326 CTGGGTTATC
* * *
3629336 TAA TAA TGA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
3629383 GAGCTAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:3630707 original size:2 final size:2
Alignment explanation
Indices: 3630702--3630735 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3630692 TCTCTCTCTT
3630702 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
3630736 CACACATATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3632330 original size:1 final size:1
Alignment explanation
Indices: 3632324--3632348 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
3632314 GTGTGTGTGG
3632324 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
3632349 ATAAATTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:3642871 original size:156 final size:156
Alignment explanation
Indices: 3642573--3642863 Score: 449
Period size: 156 Copynumber: 1.9 Consensus size: 156
3642563 TTCTGGGATG
** * * *
3642573 AATTTCACTTGCATTGCTTTCCACATGAGTAGTTGCTTCAGCTTCAGACAAATTTGATTTCATTT
1 AATTTCACTTGCATTGAGTTCCACATGAGCAGTTGCTCCAGCTTCAGACAAATTTGATTCCATTT
* * * ** *
3642638 CCAGCTGACTTTCTCCATCTCCTGATGTGATCTCAACCAAATCATGATGAACATCTCTATTCTCG
66 CCAACCGACTTTCTCCATCTCCTAATACGATCTCAACCAAATCATGATGAACATCTCTATTATCG
3642703 GCTTGGCCAACATGAGATGTTGGTAC
131 GCTTGGCCAACATGAGATGTTGGTAC
3642729 AATTTCACTTGCATTGAGTTCCACATGAGCAGTTGCTCCAGCTTCAGACAAATTTGATTCCATTT
1 AATTTCACTTGCATTGAGTTCCACATGAGCAGTTGCTCCAGCTTCAGACAAATTTGATTCCATTT
* *
3642794 CCAACCGACTTTCTTCATCT-CTCAATACGATCTCAACCACATCATGATGAACATCTCTATTATC
66 CCAACCGACTTTCTCCATCTCCT-AATACGATCTCAACCAAATCATGATGAACATCTCTATTATC
3642858 GGCTTG
130 GGCTTG
3642864 TTCAACATCC
Statistics
Matches: 121, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
155 2 0.02
156 119 0.98
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.34
Consensus pattern (156 bp):
AATTTCACTTGCATTGAGTTCCACATGAGCAGTTGCTCCAGCTTCAGACAAATTTGATTCCATTT
CCAACCGACTTTCTCCATCTCCTAATACGATCTCAACCAAATCATGATGAACATCTCTATTATCG
GCTTGGCCAACATGAGATGTTGGTAC
Found at i:3645186 original size:18 final size:20
Alignment explanation
Indices: 3645163--3645199 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
3645153 AAATGTAATC
3645163 CTCTGT-TTTTCT-TTTCTG
1 CTCTGTGTTTTCTCTTTCTG
3645181 CTCTGTGTTTTCTCTTTCT
1 CTCTGTGTTTTCTCTTTCT
3645200 TTTTGCTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.00, C:0.24, G:0.11, T:0.65
Consensus pattern (20 bp):
CTCTGTGTTTTCTCTTTCTG
Found at i:3649520 original size:3 final size:3
Alignment explanation
Indices: 3649492--3649550 Score: 82
Period size: 3 Copynumber: 19.7 Consensus size: 3
3649482 CTGGGTTATC
* * *
3649492 TAA TAA TGA TAA TGA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
3649540 TAA TAA CAA TA
1 TAA TAA TAA TA
3649551 GAGCTAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:3668290 original size:60 final size:60
Alignment explanation
Indices: 3668194--3668317 Score: 214
Period size: 60 Copynumber: 2.1 Consensus size: 60
3668184 CCAACGTTAA
* *
3668194 GATCTTTTGGTTTGTTTTGATTTTCTTCTTCATTTTGATGTATATGCTCTGAGCTCTTGC
1 GATCTTTTGGTTTATTTTGATTTTCTTCTTCATTTTGATGTATATGCTCTGAGCTATTGC
*
3668254 GATCTTTTGGTTTATTTTGATTTTCTTCTTCGTTTTGATGTATATGCTCTGAGCTATTGC
1 GATCTTTTGGTTTATTTTGATTTTCTTCTTCATTTTGATGTATATGCTCTGAGCTATTGC
3668314 -ATCT
1 GATCT
3668318 GTCTCGAAGC
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
59 4 0.07
60 57 0.93
ACGTcount: A:0.13, C:0.15, G:0.18, T:0.55
Consensus pattern (60 bp):
GATCTTTTGGTTTATTTTGATTTTCTTCTTCATTTTGATGTATATGCTCTGAGCTATTGC
Found at i:3671327 original size:5 final size:6
Alignment explanation
Indices: 3671283--3671359 Score: 56
Period size: 6 Copynumber: 13.2 Consensus size: 6
3671273 TTGAATCGAT
*
3671283 TATAAA TTTAAA TAT--A TATAAA -ATAAA T-TAAA TATAAA TATAATA
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAAA TATAA-A
* * *
3671328 TTTTAA TATCAAA T-TAAA TTTAAA TATTAAA T
1 TATAAA TAT-AAA TATAAA TATAAA TA-TAAA T
3671360 TTATAAAATC
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
4 4 0.07
5 14 0.25
6 26 0.46
7 12 0.21
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (6 bp):
TATAAA
Found at i:3671333 original size:20 final size:19
Alignment explanation
Indices: 3671283--3671359 Score: 70
Period size: 20 Copynumber: 4.1 Consensus size: 19
3671273 TTGAATCGAT
*
3671283 TATAA-ATTTAAATATATA
1 TATAATATTTAAATATAAA
* *
3671301 TAAAATAAATTAAATATAAA
1 TATAAT-ATTTAAATATAAA
*
3671321 TATAATATTTTAATATCAAA
1 TATAATATTTAAATAT-AAA
3671341 T-TAA-ATTTAAATATTAAA
1 TATAATATTTAAATA-TAAA
3671359 T
1 T
3671360 TTATAAAATC
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
18 16 0.33
19 12 0.25
20 20 0.42
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (19 bp):
TATAATATTTAAATATAAA
Found at i:3671342 original size:31 final size:32
Alignment explanation
Indices: 3671283--3671378 Score: 110
Period size: 32 Copynumber: 3.0 Consensus size: 32
3671273 TTGAATCGAT
3671283 TATAAAT-TTAAATATATATAAAAT-AAATTAAA
1 TATAAATATTAAAT-T-TATAAAATCAAATTAAA
*
3671315 TATAAATA-TAATATTT-TAATATCAAATTAAA
1 TATAAATATTAA-ATTTATAAAATCAAATTAAA
* *
3671346 TTTAAATATTAAATTTATAAAATCAAATCAAA
1 TATAAATATTAAATTTATAAAATCAAATTAAA
3671378 T
1 T
3671379 TCACTAAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
30 5 0.09
31 20 0.36
32 28 0.51
33 2 0.04
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (32 bp):
TATAAATATTAAATTTATAAAATCAAATTAAA
Found at i:3687849 original size:3 final size:3
Alignment explanation
Indices: 3687841--3687924 Score: 71
Period size: 3 Copynumber: 28.0 Consensus size: 3
3687831 CATAATCATT
* * * *
3687841 TTC TTC TTC TT- TCCC TTC TTC TTC TTC TCC TCC TTC TTC TTC ATC
1 TTC TTC TTC TTC T-TC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * * * *
3687886 TTC TTC ATC CTC TTC CTC CTC TTC TTC TCC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
3687925 CCTCTTTCTC
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
2 1 0.02
3 64 0.97
4 1 0.02
ACGTcount: A:0.02, C:0.42, G:0.00, T:0.56
Consensus pattern (3 bp):
TTC
Found at i:3692939 original size:48 final size:48
Alignment explanation
Indices: 3692887--3692978 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
3692877 ACTTCAATAG
* *
3692887 TAACTGCATTTATCATCAAAAAATTGATACAATATGAAAGTATTATAC
1 TAACTACATTTATCATCAAAAAAGTGATACAATATGAAAGTATTATAC
*
3692935 TAACTACATTTATCATCAAAAAAGTGATTCAATATGAAAGTATT
1 TAACTACATTTATCATCAAAAAAGTGATACAATATGAAAGTATT
3692979 TGGTAGAATC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.34
Consensus pattern (48 bp):
TAACTACATTTATCATCAAAAAAGTGATACAATATGAAAGTATTATAC
Found at i:3697270 original size:24 final size:23
Alignment explanation
Indices: 3697243--3697287 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
3697233 ATGTTTTATT
*
3697243 AATTTATTTAATTTAATATAAATA
1 AATTTATTTAAATTAAT-TAAATA
3697267 AATTTATTTAAATTAATTAAA
1 AATTTATTTAAATTAATTAAA
3697288 AATTGAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
AATTTATTTAAATTAATTAAATA
Found at i:3697727 original size:19 final size:20
Alignment explanation
Indices: 3697705--3697750 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
3697695 TATTAAAAAA
* *
3697705 AATAAATTTTA-ATTGATTG
1 AATAAATTTCATATTGATAG
3697724 AATAAATTTCATATTGATAG
1 AATAAATTTCATATTGATAG
3697744 AATAAAT
1 AATAAAT
3697751 ATATTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (20 bp):
AATAAATTTCATATTGATAG
Found at i:3700760 original size:168 final size:167
Alignment explanation
Indices: 3700482--3700816 Score: 528
Period size: 168 Copynumber: 2.0 Consensus size: 167
3700472 CCCTAAGAGT
* *
3700482 TGATGGCTGGACAATTTCAAACCCTGGTTTAAATTAACAAATATTTATCGGTTTCAACCTTATGT
1 TGATGGCTGGACAATTTCAAACCCTGATTTAAATTAACAAATATTTATAGGTTTCAACCTTATGT
* *
3700547 TACTTAAGGGCTATTTTATCATTAAATTTAAAATGTATAATAAAAAATATATTAAAAATTTTAAA
66 TACTTAAGGGCTATTTTAACATTAAATTTAAAATGTACAATAAAAAATATATTAAAAATTTTAAA
* *
3700612 TGTTTGATAATGGTGAAAAAGGACTATAAATAATTTAA
131 TCTTTGATAACGGTG-AAAAGGACTATAAATAATTTAA
* * *
3700650 TGATGGCTGGGCACTTTCAAACCCTGATTTAAATTAACAAATCTTTCA-AGGTTTCAACCTTATG
1 TGATGGCTGGACAATTTCAAACCCTGATTTAAATTAACAAATATTT-ATAGGTTTCAACCTTATG
* * *
3700714 TTGCTTAAGGGCTATTTTAACATTAAATTTAAAATTTACGATAAAAAATATATTAAAAATTTTAA
65 TTACTTAAGGGCTATTTTAACATTAAATTTAAAATGTACAATAAAAAATATATTAAAAATTTTAA
*
3700779 ATCTTTGATAACGGTGAAAAGTACTATAAATAATTTAA
130 ATCTTTGATAACGGTGAAAAGGACTATAAATAATTTAA
3700817 AAGTTTAAAA
Statistics
Matches: 153, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
167 21 0.14
168 131 0.86
169 1 0.01
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.37
Consensus pattern (167 bp):
TGATGGCTGGACAATTTCAAACCCTGATTTAAATTAACAAATATTTATAGGTTTCAACCTTATGT
TACTTAAGGGCTATTTTAACATTAAATTTAAAATGTACAATAAAAAATATATTAAAAATTTTAAA
TCTTTGATAACGGTGAAAAGGACTATAAATAATTTAA
Found at i:3702461 original size:12 final size:13
Alignment explanation
Indices: 3702443--3702474 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
3702433 AACGATTAAA
3702443 AATAAATATATTT
1 AATAAATATATTT
3702456 -ATAAAT-TATTT
1 AATAAATATATTT
3702467 AATAAATA
1 AATAAATA
3702475 CTTTATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATAAATATATTT
Found at i:3702997 original size:447 final size:446
Alignment explanation
Indices: 3702141--3703006 Score: 1118
Period size: 447 Copynumber: 1.9 Consensus size: 446
3702131 AGAAAAACAT
* *
3702141 TTAATGATGCTTATATAAAGAGAATAAAAATAATAATTAACATGACAAATGAATAATATTTTACA
1 TTAATGATGCTTAAACAAAGAGAATAAAAATAATAATTAACATGACAAATGAATAATATTTTACA
* * * * *
3702206 TGGTAGTATTTATATAGCATAATATTAAAAACTGCAGATAAAAATATATATATAAGTAAGAAGTC
66 TGGTAGTATTCATATAGCACAATATTAAAAACCGCAGATAAAAATATATATATAAATAAGAAATC
**
3702271 TTTGTTATTCAACTCCGATCTTTAAGACGAAAACTTGCCATCAAGAACAACAAAAAAAGAAGCAA
131 TTTGTTATTCAACTCCGATCTCGAAGACGAAAACTTGCCATCAAGAACAACAAAAAAAGAAGCAA
* ** **
3702336 GTCTTCGTGAAAAATAGCAAGTTTATTATATTTATAATTTATTTGTTTAATTAACAAATTTTAGA
196 GTCTTCGTAAAAAATAGCAAAATTATTATATTTATAATTTATTCATTTAATTAACAAATTTTAGA
* * * * * * *
3702401 ATGTAAGTTGTAATTATTTATTAAATTTAATAAACGATTAAAAATAAATATATTTATAAATTATT
261 ATGTAAATTATAATTATTTATTAAATTTAATAAAAGAATAAAAATAAATATATTCATAAACTATG
* * * *
3702466 TAATAAATACTTTATTTTTTAAATTTAAATGAATCAAATATGAGCAAAATTTATTATGTCAGTGA
326 TAACAAATACTTTATTTTTTAAATATAAATGAAACAAATATGAGCAAAATTTATTATGTCAGTAA
*
3702531 TTTATTTGTTTAATTAATTAATTTTGGAATAATGTTCGTAATTGGTTGAAATGTTAAA
391 TTTACTTG-TT-ATTAATTAATTTTGGAATAATGTTCGTAATTGGTTGAAATGTTAAA
*
3702589 TTAATGATGCTTAAACGAAGAGAATAAAAATAATAATTAACATGACAAATGAATAATA-TTTACA
1 TTAATGATGCTTAAACAAAGAGAATAAAAATAATAATTAACATGACAAATGAATAATATTTTACA
*
3702653 TGGCT-GTATTCATATAGCACAATATTAAAAACACG-AGATAAAAA-A-ATATGTAAATAAGAAA
66 TGG-TAGTATTCATATAGCACAATATTAAAAAC-CGCAGATAAAAATATATATATAAATAAGAAA
* * * ** * *
3702714 TCTTTTTTATTCACCTCTGATCTCGAAGACG-AAACTTGTTATCAAGAACAACAAGAAAAGAGGC
129 TCTTTGTTATTCAACTCCGATCTCGAAGACGAAAACTTGCCATCAAGAACAACAAAAAAAGAAGC
* * *
3702778 AAGTCTTTGTAAAAAAAAGTGGCAAAATTATTATATTTATAATTTATTCATTTAATTAATAAATT
194 AAGTCTTCGT--AAAAAA-TAGCAAAATTATTATATTTATAATTTATTCATTTAATTAACAAATT
* * * * *
3702843 TTAGAATGTAAATTATGATTGTTTGTTAAATTTAATAAAAGAATAAAAATAAATATGTTCATGAA
256 TTAGAATGTAAATTATAATTATTTATTAAATTTAATAAAAGAATAAAAATAAATATATTCATAAA
* * *
3702908 CTATGTAACAAATGCTCTATTTTTATTTTATATATAAATGAAACAAATATGAAG-AAAATTTATT
321 CTATGTAACAAAT--ACT-TTATT-TTTTAAATATAAATGAAACAAATATG-AGCAAAATTTATT
*
3702972 ATGTTTA-TAATTTACTTGTTTAATTAATTAATTTT
381 ATG-TCAGTAATTTACTTG-TT-ATTAATTAATTTT
3703007 AAAATATTAT
Statistics
Matches: 360, Mismatches: 47, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
444 38 0.11
445 39 0.11
446 6 0.02
447 148 0.41
448 57 0.16
449 2 0.01
450 4 0.01
451 62 0.17
452 4 0.01
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.37
Consensus pattern (446 bp):
TTAATGATGCTTAAACAAAGAGAATAAAAATAATAATTAACATGACAAATGAATAATATTTTACA
TGGTAGTATTCATATAGCACAATATTAAAAACCGCAGATAAAAATATATATATAAATAAGAAATC
TTTGTTATTCAACTCCGATCTCGAAGACGAAAACTTGCCATCAAGAACAACAAAAAAAGAAGCAA
GTCTTCGTAAAAAATAGCAAAATTATTATATTTATAATTTATTCATTTAATTAACAAATTTTAGA
ATGTAAATTATAATTATTTATTAAATTTAATAAAAGAATAAAAATAAATATATTCATAAACTATG
TAACAAATACTTTATTTTTTAAATATAAATGAAACAAATATGAGCAAAATTTATTATGTCAGTAA
TTTACTTGTTATTAATTAATTTTGGAATAATGTTCGTAATTGGTTGAAATGTTAAA
Found at i:3705479 original size:15 final size:15
Alignment explanation
Indices: 3705459--3705544 Score: 77
Period size: 15 Copynumber: 5.7 Consensus size: 15
3705449 CCATCCACAA
* *
3705459 GGATATCCTCCTTAT
1 GGATATCCCCCTCAT
3705474 GGATATCCCCCTCAT
1 GGATATCCCCCTCAT
* *
3705489 GGATATCCCCCACAA
1 GGATATCCCCCTCAT
* *
3705504 GGCTA-CCCACTGGC-T
1 GGATATCCCCCT--CAT
*
3705519 CGATATCCCCCTCAT
1 GGATATCCCCCTCAT
3705534 GGATATCCCCC
1 GGATATCCCCC
3705545 ACAAGGCTAC
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
14 5 0.09
15 44 0.80
16 6 0.11
ACGTcount: A:0.21, C:0.40, G:0.15, T:0.24
Consensus pattern (15 bp):
GGATATCCCCCTCAT
Found at i:3705524 original size:45 final size:45
Alignment explanation
Indices: 3705475--3705571 Score: 185
Period size: 45 Copynumber: 2.2 Consensus size: 45
3705465 CCTCCTTATG
3705475 GATATCCCCCTCATGGATATCCCCCACAAGGCTACCCACTGGCTC
1 GATATCCCCCTCATGGATATCCCCCACAAGGCTACCCACTGGCTC
*
3705520 GATATCCCCCTCATGGATATCCCCCACAAGGCTACCCACTGGCTG
1 GATATCCCCCTCATGGATATCCCCCACAAGGCTACCCACTGGCTC
3705565 GATATCC
1 GATATCC
3705572 TCCACCAGGA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.23, C:0.40, G:0.16, T:0.21
Consensus pattern (45 bp):
GATATCCCCCTCATGGATATCCCCCACAAGGCTACCCACTGGCTC
Found at i:3705600 original size:18 final size:18
Alignment explanation
Indices: 3705579--3705614 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
3705569 TCCTCCACCA
3705579 GGAGGGTATCCGCCAGGT
1 GGAGGGTATCCGCCAGGT
3705597 GGAGGGTATCCGCCAGGT
1 GGAGGGTATCCGCCAGGT
3705615 TATCCTCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.22, G:0.44, T:0.17
Consensus pattern (18 bp):
GGAGGGTATCCGCCAGGT
Found at i:3706804 original size:4 final size:4
Alignment explanation
Indices: 3706797--3706823 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
3706787 TATATATATA
3706797 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
3706824 ACAATTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:3707358 original size:32 final size:32
Alignment explanation
Indices: 3707316--3707376 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
3707306 CTTTTCCATG
*
3707316 TTTGACATATCCTATATTTTGTCAAAATCATA
1 TTTGACATATCCCATATTTTGTCAAAATCATA
* *
3707348 TTTGAGATATCCCATATTTTGTTAAAATC
1 TTTGACATATCCCATATTTTGTCAAAATC
3707377 TTATGAGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (32 bp):
TTTGACATATCCCATATTTTGTCAAAATCATA
Found at i:3709321 original size:19 final size:20
Alignment explanation
Indices: 3709297--3709342 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
3709287 TTATTAAAAA
* *
3709297 AATAAATTTTA-ATTGATTG
1 AATAAATTTCATATTGATAG
3709316 AATAAATTTCATATTGATAG
1 AATAAATTTCATATTGATAG
3709336 AATAAAT
1 AATAAAT
3709343 ATATTATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (20 bp):
AATAAATTTCATATTGATAG
Found at i:3710096 original size:31 final size:31
Alignment explanation
Indices: 3710060--3710118 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
3710050 TCTCTTCATT
* *
3710060 ATCAAGTTTTATCTTTTCATGATTATGGGTC
1 ATCAAGATTTATCTTTTCATGATAATGGGTC
* *
3710091 ATCAAGATTTCTCTTTTTATGATAATGG
1 ATCAAGATTTATCTTTTCATGATAATGG
3710119 TTTGTTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.47
Consensus pattern (31 bp):
ATCAAGATTTATCTTTTCATGATAATGGGTC
Found at i:3716590 original size:15 final size:15
Alignment explanation
Indices: 3716570--3716610 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
3716560 CCATCCACAA
* *
3716570 GGATATCCTCCTTAT
1 GGATATCCCCCTCAT
3716585 GGATATCCCCCTCAT
1 GGATATCCCCCTCAT
3716600 GGATATCCCCC
1 GGATATCCCCC
3716611 ACAAGGCTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.20, C:0.37, G:0.15, T:0.29
Consensus pattern (15 bp):
GGATATCCCCCTCAT
Found at i:3718388 original size:32 final size:32
Alignment explanation
Indices: 3718346--3718406 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
3718336 CTTTTCCATG
*
3718346 TTTGACATATCCTATATTTTGTCAAAATCATA
1 TTTGACATATCCCATATTTTGTCAAAATCATA
* *
3718378 TTTGAGATATCCCATATTTTGTTAAAATC
1 TTTGACATATCCCATATTTTGTCAAAATC
3718407 TTATGAGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (32 bp):
TTTGACATATCCCATATTTTGTCAAAATCATA
Found at i:3718563 original size:16 final size:18
Alignment explanation
Indices: 3718544--3718580 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
3718534 GCTTATATTT
3718544 TTTAAAGT-TT-ATATAA
1 TTTAAAGTATTGATATAA
*
3718560 TTTAAATTATTGATATAA
1 TTTAAAGTATTGATATAA
3718578 TTT
1 TTT
3718581 TTAAGGGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
TTTAAAGTATTGATATAA
Found at i:3722443 original size:10 final size:11
Alignment explanation
Indices: 3722426--3722451 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3722416 AAAAGAGCAT
3722426 GAAAAAAAAAA
1 GAAAAAAAAAA
3722437 GAAAAAAAAAA
1 GAAAAAAAAAA
3722448 GAAA
1 GAAA
3722452 GGATCTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:3724154 original size:2 final size:2
Alignment explanation
Indices: 3724149--3724178 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
3724139 TGGGCTTTTT
*
3724149 TG TG TG CG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
3724179 GGGTGTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.03, G:0.50, T:0.47
Consensus pattern (2 bp):
TG
Found at i:3728860 original size:2 final size:2
Alignment explanation
Indices: 3728853--3728878 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3728843 ATTACTGTAA
3728853 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
3728879 CAATGACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3729130 original size:19 final size:19
Alignment explanation
Indices: 3729056--3729149 Score: 66
Period size: 19 Copynumber: 4.9 Consensus size: 19
3729046 TATGTCATCT
*
3729056 ATATATATTTGTATTAGTT-
1 ATATATATTTATATTA-TTC
* * *
3729075 ATATCTATTTTTGTATATTC
1 ATATATATTTATAT-TATTC
* *
3729095 ATAT-TAATTATGTTTATTC
1 ATATATATTTAT-ATTATTC
*
3729114 GTATATATTTATATTATTC
1 ATATATATTTATATTATTC
* *
3729133 ATATTTATTTATGTTAT
1 ATATATATTTATATTAT
3729150 GCCGTATCAA
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
19 46 0.78
20 13 0.22
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (19 bp):
ATATATATTTATATTATTC
Found at i:3729139 original size:29 final size:28
Alignment explanation
Indices: 3729057--3729141 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 28
3729047 ATGTCATCTA
* * **
3729057 TATATATTTGTATTAGTTATATCTATTTT
1 TATATATTTATATTA-TTATATTTATTCG
* * *
3729086 TGTATATTCATATTAATTATGTTTATTCG
1 TATATATTTATATT-ATTATATTTATTCG
3729115 TATATATTTATATTATTCATATTTATT
1 TATATATTTATATTATT-ATATTTATT
3729142 TATGTTATGC
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
28 3 0.07
29 40 0.91
30 1 0.02
ACGTcount: A:0.29, C:0.05, G:0.06, T:0.60
Consensus pattern (28 bp):
TATATATTTATATTATTATATTTATTCG
Found at i:3729440 original size:19 final size:20
Alignment explanation
Indices: 3729416--3729457 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
3729406 TGAGCAATAG
*
3729416 ATTAAATGTTTAATTT-TAA
1 ATTAAATATTTAATTTATAA
*
3729435 ATTAAATATTTAGTTTATAA
1 ATTAAATATTTAATTTATAA
3729455 ATT
1 ATT
3729458 TTATATACTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (20 bp):
ATTAAATATTTAATTTATAA
Found at i:3730360 original size:18 final size:20
Alignment explanation
Indices: 3730333--3730371 Score: 64
Period size: 18 Copynumber: 2.0 Consensus size: 20
3730323 CATGTTAGTT
3730333 TTTTTATTATAATAAA-TAA
1 TTTTTATTATAATAAACTAA
3730352 TTTTT-TTATAATAAACTAA
1 TTTTTATTATAATAAACTAA
3730371 T
1 T
3730372 AAATAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTTATTATAATAAACTAA
Found at i:3730888 original size:31 final size:31
Alignment explanation
Indices: 3730850--3730911 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
3730840 AAAATACTTA
*
3730850 AATCTCAATGTTCAGTTAGTCTTATTATTTT
1 AATCTCAATGTTCAGTTAATCTTATTATTTT
*
3730881 AATCTCAATGTTTAGTTAATCTTATTATTTT
1 AATCTCAATGTTCAGTTAATCTTATTATTTT
3730912 CTCCTTTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.53
Consensus pattern (31 bp):
AATCTCAATGTTCAGTTAATCTTATTATTTT
Found at i:3732223 original size:16 final size:16
Alignment explanation
Indices: 3732202--3732245 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 16
3732192 AGTGAAGACA
3732202 GTTACTTTATTCCAAG
1 GTTACTTTATTCCAAG
*
3732218 GTTACTCTA----AAG
1 GTTACTTTATTCCAAG
3732230 GTTACTTTATTCCAAG
1 GTTACTTTATTCCAAG
3732246 TGCAATTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 8
0.69 0.06 0.25
Matches are distributed among these distances:
12 11 0.50
16 11 0.50
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (16 bp):
GTTACTTTATTCCAAG
Found at i:3733987 original size:18 final size:20
Alignment explanation
Indices: 3733946--3733993 Score: 64
Period size: 18 Copynumber: 2.5 Consensus size: 20
3733936 ATATAATTAT
*
3733946 ATATTTATATTTTAAAAAATA
1 ATATTT-TATATTAAAAAATA
3733967 ATATTTTATATT-AAAAA-A
1 ATATTTTATATTAAAAAATA
3733985 ATATTTTAT
1 ATATTTTAT
3733994 TAAATTTACG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 10 0.38
19 5 0.19
20 5 0.19
21 6 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATTTTATATTAAAAAATA
Found at i:3736841 original size:66 final size:65
Alignment explanation
Indices: 3736765--3736898 Score: 225
Period size: 66 Copynumber: 2.0 Consensus size: 65
3736755 ATATGTTATT
3736765 TATGGATGATATAATTTTAGTTATTGAAACTAGTTGAT-TCTTCAATGTGAAGTTAGAAGTATGG
1 TATGGATGATATAATTTTAGTTATTGAAACTAG-TGATATCTT-AATGTGAAGTTAGAAGTATGG
3736829 AG
64 AG
*
3736831 TATGGATGATATAATTTTAGTTATTTAAACTAGTGATGATCTTAATGTGAAGTTAGAAGTATGGA
1 TATGGATGATATAATTTTAGTTATTGAAACTAGTGAT-ATCTTAATGTGAAGTTAGAAGTATGGA
3736896 G
65 G
3736897 TA
1 TA
3736899 GGGTTGGCTG
Statistics
Matches: 65, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
65 4 0.06
66 57 0.88
67 4 0.06
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (65 bp):
TATGGATGATATAATTTTAGTTATTGAAACTAGTGATATCTTAATGTGAAGTTAGAAGTATGGAG
Found at i:3737141 original size:22 final size:22
Alignment explanation
Indices: 3737104--3737156 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
3737094 ATTTTAATTT
3737104 ATATATTTATATTTTAAAAAAATA
1 ATAT-TTTATATTTT-AAAAAATA
*
3737128 ATATTTTATA-TTTAAAGAATA
1 ATATTTTATATTTTAAAAAATA
3737149 A-ATTTTAT
1 ATATTTTAT
3737157 TAATTTCGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.25
21 8 0.29
22 3 0.11
23 6 0.21
24 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
ATATTTTATATTTTAAAAAATA
Found at i:3740226 original size:21 final size:22
Alignment explanation
Indices: 3740195--3740242 Score: 80
Period size: 21 Copynumber: 2.2 Consensus size: 22
3740185 TTAATTTTAA
3740195 TTTATATTTTAAAAAATAATAT
1 TTTATATTTTAAAAAATAATAT
*
3740217 TTTATA-TTTAAAGAATAATAT
1 TTTATATTTTAAAAAATAATAT
3740238 TTTAT
1 TTTAT
3740243 TAATTTCGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTATATTTTAAAAAATAATAT
Found at i:3743804 original size:6 final size:6
Alignment explanation
Indices: 3743799--3743833 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
3743789 AAATTTCACA
*
3743799 AGCACA AGCACG AGCACG AGCACG AGCACG AGCAC
1 AGCACG AGCACG AGCACG AGCACG AGCACG AGCAC
3743834 AATTCTGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.37, C:0.34, G:0.29, T:0.00
Consensus pattern (6 bp):
AGCACG
Found at i:3743826 original size:18 final size:18
Alignment explanation
Indices: 3743795--3743835 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
3743785 CTCCAAATTT
*
3743795 CACAAGCACAAGCACGAG
1 CACAAGCACGAGCACGAG
*
3743813 CACGAGCACGAGCACGAG
1 CACAAGCACGAGCACGAG
3743831 CACAA
1 CACAA
3743836 TTCTGCTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.34, G:0.24, T:0.00
Consensus pattern (18 bp):
CACAAGCACGAGCACGAG
Found at i:3747464 original size:19 final size:20
Alignment explanation
Indices: 3747440--3747481 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
3747430 TGAGCAATAG
*
3747440 ATTAAATGTTTAATTT-TAA
1 ATTAAATATTTAATTTATAA
*
3747459 ATTAAATATTTAGTTTATAA
1 ATTAAATATTTAATTTATAA
3747479 ATT
1 ATT
3747482 TTATATACTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (20 bp):
ATTAAATATTTAATTTATAA
Found at i:3748385 original size:17 final size:19
Alignment explanation
Indices: 3748358--3748394 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
3748348 ATGTTAGTTT
3748358 TTTTATTATAATAAA-TAA
1 TTTTATTATAATAAACTAA
3748376 TTTT-TTATAATAAACTAA
1 TTTTATTATAATAAACTAA
3748394 T
1 T
3748395 AAATAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTTATTATAATAAACTAA
Found at i:3748910 original size:31 final size:31
Alignment explanation
Indices: 3748872--3748933 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
3748862 AAAATACTTA
*
3748872 AATCTCAATGTTCAGTTAGTCTTATTATTTT
1 AATCTCAATGTTCAGTTAATCTTATTATTTT
*
3748903 AATCTCAATGTTTAGTTAATCTTATTATTTT
1 AATCTCAATGTTCAGTTAATCTTATTATTTT
3748934 CTCCTTTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.53
Consensus pattern (31 bp):
AATCTCAATGTTCAGTTAATCTTATTATTTT
Found at i:3750244 original size:16 final size:16
Alignment explanation
Indices: 3750223--3750266 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 16
3750213 AGTGAAGACA
3750223 GTTACTTTATTCCAAG
1 GTTACTTTATTCCAAG
*
3750239 GTTACTCTA----AAG
1 GTTACTTTATTCCAAG
3750251 GTTACTTTATTCCAAG
1 GTTACTTTATTCCAAG
3750267 TGCAATTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 8
0.69 0.06 0.25
Matches are distributed among these distances:
12 11 0.50
16 11 0.50
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (16 bp):
GTTACTTTATTCCAAG
Found at i:3750651 original size:24 final size:24
Alignment explanation
Indices: 3750624--3750682 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
3750614 AAAATATCAA
3750624 TTTATTCCAAGAT-AAGACAGTTAC
1 TTTATTCCAAG-TGAAGACAGTTAC
3750648 TTTATTCCAAGTGAAGACAGTTAC
1 TTTATTCCAAGTGAAGACAGTTAC
3750672 TTTATTCCAAG
1 TTTATTCCAAG
3750683 GTTACTCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 1 0.03
24 33 0.97
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36
Consensus pattern (24 bp):
TTTATTCCAAGTGAAGACAGTTAC
Found at i:3750688 original size:16 final size:16
Alignment explanation
Indices: 3750667--3750710 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 16
3750657 AGTGAAGACA
3750667 GTTACTTTATTCCAAG
1 GTTACTTTATTCCAAG
*
3750683 GTTACTCTA----AAG
1 GTTACTTTATTCCAAG
3750695 GTTACTTTATTCCAAG
1 GTTACTTTATTCCAAG
3750711 TGCAATTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 8
0.69 0.06 0.25
Matches are distributed among these distances:
12 11 0.50
16 11 0.50
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (16 bp):
GTTACTTTATTCCAAG
Found at i:3751028 original size:444 final size:444
Alignment explanation
Indices: 3750199--3752845 Score: 5051
Period size: 444 Copynumber: 6.0 Consensus size: 444
3750189 ATTGTGCAAG
3750199 GTTACTTTATTCCAAGTGAAGACAGTTACTTTATTCCAAGGTTACTCTAAAGGTTACTTTATTCC
1 GTTACTTTATTCCAAGTGAAGACAGTTACTTTATTCCAAGGTTACTCTAAAGGTTACTTTATTCC
3750264 AAGTGCAATTACTTTAGAACTAATTATAGCGAATGAGAATGTTGTCACACTAGTTATACCAAGTG
66 AAGTGCAATTACTTTAGAACTAATTATAGCGAATGAGAATGTTGTCACACTAGTTATACCAAGTG
3750329 TGTAAGGTTGCTTTATCTTAAGGTTATACTGAGTGAGAGTGTGATAACACAAAGATATATAAGAT
131 TGTAAGGTTGCTTTATCTTAAGGTTATACTGAGTGAGAGTGTGATAACACAAAGATATATAAGAT
*
3750394 TCATGAATCACGTGTTAAGTGATGGAACTTAAAGGGGGACAAAATATTAGCTTTTAGGGATAGAT
196 TCATGAATCACGTGTTAAGTGGTGGAACTTAAAGGGGGACAAAATATTAGCTTTTAGGGATAGAT
3750459 TGGTAAAAGAAGTTTTTTGAAAACCTGATGAAGATGTATAGATAATATTAAAAAATATTTTTACC
261 TGGTAAAAGAAGTTTTTTGAAAACCTGATGAAGATGTATAGATAATATTAAAAAATATTTTTACC
3750524 AGAATTTAAAAAGTTATTAAAGAGACACTGGACAAATCTAAGGGTTATGCATTATCAAAAAATGA
326 AGAATTTAAAAAGTTATTAAAGAGACACTGGACAAATCTAAGGGTTATGCATTATCAAAAAATGA
*
3750589 ATCTTGGTGGTGGAATGAGGATATAAAAATATCAATTTATTCCAAGATAAGACA
391 ATCTTGGTGGTGGAATGAGGATATAAAAATAGCAATTTATTCCAAGATAAGACA
3750643 GTTACTTTATTCCAAGTGAAGACAGTTACTTTATTCCAAGGTTACTCTAAAGGTTACTTTATTCC
1 GTTACTTTATTCCAAGTGAAGACAGTTACTTTATTCCAAGGTTACTCTAAAGGTTACTTTATTCC
3750708 AAGTGCAATTACTTTAGAACTAATTATAGCGAATGAGAATGTTGTCACACTAGTTATACCAAGTG
66 AAGTGCAATTACTTTAGAACTAATTATAGCGAATGAGAATGTTGTCACACTAGTTATACCAAGTG
*
3750773 TGTAAGGTTGCTTTATCTTAAGGTTATACTGAGTGAGAGTGTGATAACATAAAGATATATAAGAT
131 TGTAAGGTTGCTTTATCTTAAGGTTATACTGAGTGAGAGTGTGATAACACAAAGATATATAAGAT
3750838 TCATGAATCACGTGTTAAGTGGTGGAACTTAAAGGGGGACAAAATATTAGCTTTTAGGGATAGAT
196 TCATGAATCACGTGTTAAGTGGTGGAACTTAAAGGGGGACAAAATATTAGCTTTTAGGGATAGAT
* *
3750903 TGGTAAAAGAAGTTTTTTAAAAACCTAATGAAGATGTATAGATAATATTAAAAAATATTTTTACC
261 TGGTAAAAGAAGTTTTTTGAAAACCTGATGAAGATGTATAGATAATATTAAAAAATATTTTTACC
3750968 AGAATTTAAAAAGTTATTAAAGAGACACTGGACAAATCTAAGGGTTATGCATTATCAAAAAATGA
326 AGAATTTAAAAAGTTATTAAAGAGACACTGGACAAATCTAAGGGTTATGCATTATCAAAAAATGA
* *
3751033 ATCTTGGTGGTGGAATGAAGATATAAAAATGGCAATTTATTCCAAGATAAGACA
391 ATCTTGGTGGTGGAATGAGGATATAAAAATAGCAATTTATTCCAAGATAAGACA
*
3751087 GTTACTTTATTCCAAGTGAAGACAGTTACTTTATTCCAAGGTTACTCTAAAGGTTACTTTATTCT
1 GTTACTTTATTCCAAGTGAAGACAGTTACTTTATTCCAAGGTTACTCTAAAGGTTACTTTATTCC
3751152 AAGTGCAATTACTTTAGAACTAATTATAGCGAATGAGAATGTTGTCACACTAGTTATACCAAGTG
66 AAGTGCAATTACTTTAGAACTAATTATAGCGAATGAGAATGTTGTCACACTAGTTATACCAAGTG
3751217 TGTAAGGTTGCTTTATCTTAAGGTTATACTGAGTGAGAGTGTGATAACACAAAGATATATAAGAT
131 TGTAAGGTTGCTTTATCTTAAGGTTATACTGAGTGAGAGTGTGATAACACAAAGATATATAAGAT
* **
3751282 TCATGAATCATGTGTTAAGTGGTGGAACTTAAAGAAGGACAAAATATTAGCTTTTAGGGATAGAT
196 TCATGAATCACGTGTTAAGTGGTGGAACTTAAAGGGGGACAAAATATTAGCTTTTAGGGATAGAT
3751347 TGGTAAAAGAAGTTTTTTGAAAACCTGATGAAGATGTATAGATAATATTAAAAAATATTTTTACC
261 TGGTAAAAGAAGTTTTTTGAAAACCTGATGAAGATGTATAGATAATATTAAAAAATATTTTTACC
3751412 AGAATTTAAAAAGTTATTAAAGAGACACTGGACAAATCTAAGGGTTATGCATTATCAAAAAATGA
326 AGAATTTAAAAAGTTATTAAAGAGACACTGGACAAATCTAAGGGTTATGCATTATCAAAAAATGA
*
3751477 ATCTTGGTGGTGGAATGAGGATATAAAAATGGCAATTTATTCCAAGATAAGACA
391 ATCTTGGTGGTGGAATGAGGATATAAAAATAGCAATTTATTCCAAGATAAGACA
*
3751531 GTTACTTTATTCCAAGTGAAGACAATTACTTTATTCCAAGGTTACTCTAAAGGTTACTTTATTCC
1 GTTACTTTATTCCAAGTGAAGACAGTTACTTTATTCCAAGGTTACTCTAAAGGTTACTTTATTCC
* *
3751596 AAGTGCAATTACTTTAGAACTAATTATAGTGAATGAGAATGTTGTCACACTAGTTATACTAAGTG
66 AAGTGCAATTACTTTAGAACTAATTATAGCGAATGAGAATGTTGTCACACTAGTTATACCAAGTG
*
3751661 TGTAAGGTTGTTTTATCTTAAGGTTATACTGAGTGAGAGTGTGATAACACAAAGATATATAAGAT
131 TGTAAGGTTGCTTTATCTTAAGGTTATACTGAGTGAGAGTGTGATAACACAAAGATATATAAGAT
3751726 TCATGAATCACGTGTTAAGTGGTGGAACTTAAAGGGGGACAAAATATTAGCTTTTAGGGATAGAT
196 TCATGAATCACGTGTTAAGTGGTGGAACTTAAAGGGGGACAAAATATTAGCTTTTAGGGATAGAT
3751791 TGGTAAAAGAAGTTTTTTGAAAACCTGATGAAGATGTATAGATAATATTAAAAAATATTTTTACC
261 TGGTAAAAGAAGTTTTTTGAAAACCTGATGAAGATGTATAGATAATATTAAAAAATATTTTTACC
*
3751856 AGAATTTAAAAAGTTATTAAAGAGACACTGAACAAATCTAAGGGTTATGCATTATCAAAAAATGA
326 AGAATTTAAAAAGTTATTAAAGAGACACTGGACAAATCTAAGGGTTATGCATTATCAAAAAATGA
*
3751921 ATCTTGGTGGTGGAATGAGGATATAAAAATCGCAATTTATTCCAAGATAAGACA
391 ATCTTGGTGGTGGAATGAGGATATAAAAATAGCAATTTATTCCAAGATAAGACA
3751975 GTTACTTTATTCCAAGTGAAGACAGTTACTTTATTCCAAGGTTACTCTAAAGGTTACTTTATTCC
1 GTTACTTTATTCCAAGTGAAGACAGTTACTTTATTCCAAGGTTACTCTAAAGGTTACTTTATTCC
3752040 AAGTGCAATTACTTTAGAACTAATTATAGCGAATGAGAATGTTGTCACACTAGTTATACCAAGTG
66 AAGTGCAATTACTTTAGAACTAATTATAGCGAATGAGAATGTTGTCACACTAGTTATACCAAGTG
3752105 TGTAAGGTTGCTTTATCTTAAGGTTATACTGAGTGAGAGTGTGATAACACAAAGATATATAAGAT
131 TGTAAGGTTGCTTTATCTTAAGGTTATACTGAGTGAGAGTGTGATAACACAAAGATATATAAGAT
*
3752170 TCATGAATCACGTGTTAAGTGGGGGAACTTAAAGGGGGACAAAATATTAGCTTTTAGGGATAGAT
196 TCATGAATCACGTGTTAAGTGGTGGAACTTAAAGGGGGACAAAATATTAGCTTTTAGGGATAGAT
* *
3752235 TGGTAAAAGAAGTTTTTTAAAAACCTAATGAAGATGTATAGATAATATTAAAAAATATTTTTACC
261 TGGTAAAAGAAGTTTTTTGAAAACCTGATGAAGATGTATAGATAATATTAAAAAATATTTTTACC
*
3752300 AGAATTTAAAAAGTTATTAAAGAGACACTAGACAAATCTAAGGGTTATGCATTATCAAAAAATGA
326 AGAATTTAAAAAGTTATTAAAGAGACACTGGACAAATCTAAGGGTTATGCATTATCAAAAAATGA
*
3752365 ATCTTGGTGGTGGAATGAGGATATAAAAATATCAATTTATTCCAAGATAAGACA
391 ATCTTGGTGGTGGAATGAGGATATAAAAATAGCAATTTATTCCAAGATAAGACA
*
3752419 GTTACTTTATTCCAAGTGAAGACAATTACTTTATTCCAAGGTTACTCTAAAGGTTACTTTATTCC
1 GTTACTTTATTCCAAGTGAAGACAGTTACTTTATTCCAAGGTTACTCTAAAGGTTACTTTATTCC
3752484 AAGTGCAATTACTTTAGAACTAATTATAGCGAATGAGAATGTTGTCACACTAGTTATACCAAGTG
66 AAGTGCAATTACTTTAGAACTAATTATAGCGAATGAGAATGTTGTCACACTAGTTATACCAAGTG
*
3752549 TGGAAGGTTGCTTTATCTTAAGGTTATACTGAGTGAGAGTGTGATAACACAAAGATATATAAGAT
131 TGTAAGGTTGCTTTATCTTAAGGTTATACTGAGTGAGAGTGTGATAACACAAAGATATATAAGAT
3752614 TCATGAATCACGTGTTAAGTGGTGGAACTTAAAGGGGGACAAAATATTAGCTTTTAGGGATAGAT
196 TCATGAATCACGTGTTAAGTGGTGGAACTTAAAGGGGGACAAAATATTAGCTTTTAGGGATAGAT
3752679 TGGTAAAAGAAGTTTTTTGAAAACCTGATGAAGATGTATAGATAATATTAAAAAATATTTTTACC
261 TGGTAAAAGAAGTTTTTTGAAAACCTGATGAAGATGTATAGATAATATTAAAAAATATTTTTACC
3752744 AGAATTTAAAAAGTTATTAAAGAGACACTGGACAAATCTAAGGGTTATGCATTATCAAAAAATGA
326 AGAATTTAAAAAGTTATTAAAGAGACACTGGACAAATCTAAGGGTTATGCATTATCAAAAAATGA
* *
3752809 ATCTTGGTGGTGGAATGAAGATATAAAAATGGCAATT
391 ATCTTGGTGGTGGAATGAGGATATAAAAATAGCAATT
3752846 AAAGTAAAGA
Statistics
Matches: 2158, Mismatches: 45, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
444 2158 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.32
Consensus pattern (444 bp):
GTTACTTTATTCCAAGTGAAGACAGTTACTTTATTCCAAGGTTACTCTAAAGGTTACTTTATTCC
AAGTGCAATTACTTTAGAACTAATTATAGCGAATGAGAATGTTGTCACACTAGTTATACCAAGTG
TGTAAGGTTGCTTTATCTTAAGGTTATACTGAGTGAGAGTGTGATAACACAAAGATATATAAGAT
TCATGAATCACGTGTTAAGTGGTGGAACTTAAAGGGGGACAAAATATTAGCTTTTAGGGATAGAT
TGGTAAAAGAAGTTTTTTGAAAACCTGATGAAGATGTATAGATAATATTAAAAAATATTTTTACC
AGAATTTAAAAAGTTATTAAAGAGACACTGGACAAATCTAAGGGTTATGCATTATCAAAAAATGA
ATCTTGGTGGTGGAATGAGGATATAAAAATAGCAATTTATTCCAAGATAAGACA
Found at i:3751095 original size:24 final size:24
Alignment explanation
Indices: 3751068--3751126 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
3751058 AAAATGGCAA
3751068 TTTATTCCAAGAT-AAGACAGTTAC
1 TTTATTCCAAG-TGAAGACAGTTAC
3751092 TTTATTCCAAGTGAAGACAGTTAC
1 TTTATTCCAAGTGAAGACAGTTAC
3751116 TTTATTCCAAG
1 TTTATTCCAAG
3751127 GTTACTCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 1 0.03
24 33 0.97
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36
Consensus pattern (24 bp):
TTTATTCCAAGTGAAGACAGTTAC
Found at i:3751539 original size:24 final size:24
Alignment explanation
Indices: 3751512--3751570 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
3751502 AAAATGGCAA
*
3751512 TTTATTCCAAGAT-AAGACAGTTAC
1 TTTATTCCAAG-TGAAGACAATTAC
3751536 TTTATTCCAAGTGAAGACAATTAC
1 TTTATTCCAAGTGAAGACAATTAC
3751560 TTTATTCCAAG
1 TTTATTCCAAG
3751571 GTTACTCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 1 0.03
24 32 0.97
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.36
Consensus pattern (24 bp):
TTTATTCCAAGTGAAGACAATTAC
Found at i:3751983 original size:24 final size:24
Alignment explanation
Indices: 3751956--3752014 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
3751946 AAAATCGCAA
3751956 TTTATTCCAAGAT-AAGACAGTTAC
1 TTTATTCCAAG-TGAAGACAGTTAC
3751980 TTTATTCCAAGTGAAGACAGTTAC
1 TTTATTCCAAGTGAAGACAGTTAC
3752004 TTTATTCCAAG
1 TTTATTCCAAG
3752015 GTTACTCTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 1 0.03
24 33 0.97
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.36
Consensus pattern (24 bp):
TTTATTCCAAGTGAAGACAGTTAC
Found at i:3752020 original size:16 final size:16
Alignment explanation
Indices: 3751999--3752042 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 16
3751989 AGTGAAGACA
3751999 GTTACTTTATTCCAAG
1 GTTACTTTATTCCAAG
*
3752015 GTTACTCTA----AAG
1 GTTACTTTATTCCAAG
3752027 GTTACTTTATTCCAAG
1 GTTACTTTATTCCAAG
3752043 TGCAATTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 8
0.69 0.06 0.25
Matches are distributed among these distances:
12 11 0.50
16 11 0.50
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (16 bp):
GTTACTTTATTCCAAG
Found at i:3752427 original size:24 final size:24
Alignment explanation
Indices: 3752400--3752458 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
3752390 AAAATATCAA
*
3752400 TTTATTCCAAGAT-AAGACAGTTAC
1 TTTATTCCAAG-TGAAGACAATTAC
3752424 TTTATTCCAAGTGAAGACAATTAC
1 TTTATTCCAAGTGAAGACAATTAC
3752448 TTTATTCCAAG
1 TTTATTCCAAG
3752459 GTTACTCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 1 0.03
24 32 0.97
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.36
Consensus pattern (24 bp):
TTTATTCCAAGTGAAGACAATTAC
Found at i:3754221 original size:24 final size:21
Alignment explanation
Indices: 3754161--3754213 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 21
3754151 TTATATAATT
3754161 ATATATTTATATTTTAAAAAATA
1 ATAT-TTTATA-TTTAAAAAATA
3754184 ATATTTTATATTTAAAAAATA
1 ATATTTTATATTTAAAAAATA
3754205 ATATTTTAT
1 ATATTTTAT
3754214 TAAATTTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 20 0.67
22 6 0.20
23 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATTTTATATTTAAAAAATA
Found at i:3757294 original size:22 final size:21
Alignment explanation
Indices: 3757261--3757313 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 21
3757251 TTTTGAATTT
3757261 ATATATTTATATTTAAAAAAATA
1 ATAT-TTTATATTT-AAAAAATA
*
3757284 ATATTTTATATTTAAAGAATA
1 ATATTTTATATTTAAAAAATA
3757305 ATATTTTAT
1 ATATTTTAT
3757314 TAATTTTGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 16 0.55
22 9 0.31
23 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATATTTTATATTTAAAAAATA
Found at i:3760372 original size:22 final size:21
Alignment explanation
Indices: 3760339--3760389 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 21
3760329 TTTTTAATTT
3760339 ATATATTTATATTTTAAAAAATA
1 ATAT-TTTATA-TTTAAAAAATA
*
3760362 ATATTTTATATTTAAAGAATA
1 ATATTTTATATTTAAAAAATA
3760383 ATATTTT
1 ATATTTT
3760390 TTTAATTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 17 0.63
22 6 0.22
23 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATATTTTATATTTAAAAAATA
Found at i:3761504 original size:2 final size:2
Alignment explanation
Indices: 3761497--3761538 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
3761487 GTTATAACTA
* *
3761497 AT AT AT AT AT AT AT A- AT AT TT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3761538 A
1 A
3761539 ATTGGAGTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:3761880 original size:2 final size:2
Alignment explanation
Indices: 3761873--3761919 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
3761863 ATTCTAATAG
3761873 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
3761915 TA TA T
1 TA TA T
3761920 TGTTTTTAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3764043 original size:6 final size:6
Alignment explanation
Indices: 3764038--3764072 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
3764028 AAATTTCACA
*
3764038 AGCACA AGCACG AGCACG AGCACG AGCACG AGCAC
1 AGCACG AGCACG AGCACG AGCACG AGCACG AGCAC
3764073 AATTCTGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.37, C:0.34, G:0.29, T:0.00
Consensus pattern (6 bp):
AGCACG
Found at i:3764065 original size:18 final size:18
Alignment explanation
Indices: 3764034--3764074 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
3764024 CTCCAAATTT
*
3764034 CACAAGCACAAGCACGAG
1 CACAAGCACGAGCACGAG
*
3764052 CACGAGCACGAGCACGAG
1 CACAAGCACGAGCACGAG
3764070 CACAA
1 CACAA
3764075 TTCTGCTTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.34, G:0.24, T:0.00
Consensus pattern (18 bp):
CACAAGCACGAGCACGAG
Found at i:3766761 original size:21 final size:21
Alignment explanation
Indices: 3766737--3766777 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3766727 AGTACCAAAA
*
3766737 GGAAGGCAAAGTTGAAGAAAT
1 GGAAGGCAAAATTGAAGAAAT
*
3766758 GGAAGGCAAAATTGATGAAA
1 GGAAGGCAAAATTGAAGAAA
3766778 GGTTATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.32, T:0.15
Consensus pattern (21 bp):
GGAAGGCAAAATTGAAGAAAT
Found at i:3769994 original size:24 final size:21
Alignment explanation
Indices: 3769958--3770003 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 21
3769948 TTCATTTTAG
3769958 TTTTTTTATTAAAATAAATAAA
1 TTTTTTTATTAAAAT-AATAAA
*
3769980 TTTTTTTATAATAAACTAATAAA
1 TTTTTTTAT--TAAAATAATAAA
3770003 T
1 T
3770004 AAATAAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 7 0.33
24 5 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTTTTATTAAAATAATAAA
Found at i:3770055 original size:12 final size:12
Alignment explanation
Indices: 3770038--3770071 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
3770028 TATTTAATTA
3770038 AAATAAATAACT
1 AAATAAATAACT
* *
3770050 ACATAAATAATT
1 AAATAAATAACT
3770062 AAATAAATAA
1 AAATAAATAA
3770072 ACATGCAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (12 bp):
AAATAAATAACT
Found at i:3773071 original size:13 final size:14
Alignment explanation
Indices: 3773053--3773085 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
3773043 AAGAAGTTAC
3773053 AATTTT-AAATAAA
1 AATTTTAAAATAAA
3773066 AATTTTAAAAATAAA
1 AATTTT-AAAATAAA
3773081 AATTT
1 AATTT
3773086 ATTTTAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
15 12 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTTTAAAATAAA
Found at i:3774846 original size:16 final size:16
Alignment explanation
Indices: 3774821--3774862 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
3774811 AAAAAATATG
*
3774821 AATCTGAAATTATTGA
1 AATCTAAAATTATTGA
*
3774837 AATCTAAAATTATTTA
1 AATCTAAAATTATTGA
*
3774853 AATTTAAAAT
1 AATCTAAAAT
3774863 CATTTAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (16 bp):
AATCTAAAATTATTGA
Found at i:3774867 original size:16 final size:16
Alignment explanation
Indices: 3774836--3774891 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
3774826 GAAATTATTG
* *
3774836 AAATCTAAAATTATTT
1 AAATTTAAAATAATTT
*
3774852 AAATTTAAAATCATTT
1 AAATTTAAAATAATTT
**
3774868 AAATTCGAAATAATTT
1 AAATTTAAAATAATTT
3774884 AAAATTTA
1 -AAATTTA
3774892 TTTGATCCTA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
16 27 0.84
17 5 0.16
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (16 bp):
AAATTTAAAATAATTT
Found at i:3776400 original size:32 final size:32
Alignment explanation
Indices: 3776331--3776400 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
3776321 GTTTTTTGGG
**
3776331 GTTTTTTTTAATAAATGCAGTTAAATGAAGAT
1 GTTTTTTTTAATAAACACAGTTAAATGAAGAT
* *
3776363 TTTTTTTTTTATAAACACAGTTAAAT-AAGGAT
1 GTTTTTTTTAATAAACACAGTTAAATGAA-GAT
3776395 GTTTTT
1 GTTTTT
3776401 ATCCATAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 2 0.06
32 30 0.94
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (32 bp):
GTTTTTTTTAATAAACACAGTTAAATGAAGAT
Found at i:3776470 original size:1 final size:1
Alignment explanation
Indices: 3776464--3776494 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
3776454 GTGGTGGTAG
3776464 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3776495 CTAATTAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:3777267 original size:6 final size:6
Alignment explanation
Indices: 3777258--3777308 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
3777248 CATTTTAAAG
* * *
3777258 AAGCAG AAGCAA AAGCAA ATGCAA AAGCAA AAGCAA AAGCAG AAGCAA
1 AAGCAA AAGCAA AAGCAA AAGCAA AAGCAA AAGCAA AAGCAA AAGCAA
3777306 AAG
1 AAG
3777309 AACCAATAGC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.61, C:0.16, G:0.22, T:0.02
Consensus pattern (6 bp):
AAGCAA
Found at i:3778434 original size:17 final size:17
Alignment explanation
Indices: 3778412--3778445 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3778402 GTGATAGTTT
3778412 TTTTCTTTTATATCTAC
1 TTTTCTTTTATATCTAC
3778429 TTTTCTTTTATATCTAC
1 TTTTCTTTTATATCTAC
3778446 CAGCATGCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTCTTTTATATCTAC
Found at i:3780468 original size:21 final size:24
Alignment explanation
Indices: 3780444--3780487 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
3780434 AAAAGAGTGC
3780444 AAGGAA-AA-AGATTAAA-AATAA
1 AAGGAAGAACAGATTAAATAATAA
3780465 AAGGAAGAACAGATTAAATAATA
1 AAGGAAGAACAGATTAAATAATA
3780488 GCTTGCATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 6 0.30
22 2 0.10
23 8 0.40
24 4 0.20
ACGTcount: A:0.66, C:0.02, G:0.16, T:0.16
Consensus pattern (24 bp):
AAGGAAGAACAGATTAAATAATAA
Found at i:3780875 original size:29 final size:29
Alignment explanation
Indices: 3780842--3780964 Score: 108
Period size: 30 Copynumber: 4.1 Consensus size: 29
3780832 CTTTACTTAG
* *
3780842 ATAAATATTTATATTTTT-ATTACATTCAA
1 ATAAATCTTTA-ATTTTTAATTATATTCAA
* **
3780871 ATAAACCTTTAATTTTTAATTTATATTTGA
1 ATAAATCTTTAATTTTTAA-TTATATTCAA
3780901 ATAAATCTTTAATTTTTAATTATA-TCTAA
1 ATAAATCTTTAATTTTTAATTATATTC-AA
* *
3780930 ATAAATTTTTAAACTTTTAATT-TATATCTAA
1 ATAAATCTTT-AATTTTTAATTATAT-TC-AA
3780961 ATAA
1 ATAA
3780965 TTTTTTAACA
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
28 7 0.09
29 27 0.35
30 35 0.45
31 9 0.12
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (29 bp):
ATAAATCTTTAATTTTTAATTATATTCAA
Found at i:3780911 original size:30 final size:30
Alignment explanation
Indices: 3780869--3780964 Score: 131
Period size: 30 Copynumber: 3.2 Consensus size: 30
3780859 TATTACATTC
* *
3780869 AAATAAACCTTTAATTTTTAATTTATATTT
1 AAATAAATCTTTAATTTTTAATTTATATCT
*
3780899 GAATAAATCTTTAATTTTTAA-TTATATCT
1 AAATAAATCTTTAATTTTTAATTTATATCT
* *
3780928 AAATAAATTTTTAAACTTTTAATTTATATCT
1 AAATAAATCTTT-AATTTTTAATTTATATCT
3780959 AAATAA
1 AAATAA
3780965 TTTTTTAACA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
29 17 0.29
30 27 0.47
31 14 0.24
ACGTcount: A:0.43, C:0.06, G:0.01, T:0.50
Consensus pattern (30 bp):
AAATAAATCTTTAATTTTTAATTTATATCT
Found at i:3780934 original size:59 final size:60
Alignment explanation
Indices: 3780842--3780956 Score: 146
Period size: 59 Copynumber: 1.9 Consensus size: 60
3780832 CTTTACTTAG
*
3780842 ATAAATATTTATATTTTTATTACATTCAAATAAACCTTT-AATTTTTAATTTATATTTGA
1 ATAAATATTTATATTTTTATTACATTCAAATAAACCTTTAAACTTTTAATTTATATTTGA
* * **
3780901 ATAAATCTTTA-ATTTTTAATTATA-TCTAAATAAATTTTTAAACTTTTAATTTATAT
1 ATAAATATTTATATTTTT-ATTACATTC-AAATAAACCTTTAAACTTTTAATTTATAT
3780957 CTAAATAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
58 8 0.17
59 25 0.52
60 15 0.31
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.53
Consensus pattern (60 bp):
ATAAATATTTATATTTTTATTACATTCAAATAAACCTTTAAACTTTTAATTTATATTTGA
Found at i:3780958 original size:31 final size:31
Alignment explanation
Indices: 3780884--3780972 Score: 119
Period size: 31 Copynumber: 2.9 Consensus size: 31
3780874 AACCTTTAAT
* * * *
3780884 TTTTAATTTATATTTGAATAAATCTTT-AAT
1 TTTTAATTTATATCTAAATAAATTTTTAAAC
3780914 TTTTAA-TTATATCTAAATAAATTTTTAAAC
1 TTTTAATTTATATCTAAATAAATTTTTAAAC
*
3780944 TTTTAATTTATATCTAAATAATTTTTTAA
1 TTTTAATTTATATCTAAATAAATTTTTAA
3780973 CATAGTTCAT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
29 17 0.33
30 14 0.27
31 21 0.40
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (31 bp):
TTTTAATTTATATCTAAATAAATTTTTAAAC
Found at i:3781058 original size:29 final size:30
Alignment explanation
Indices: 3780996--3781069 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
3780986 TTCTTTTGAA
* *
3780996 ATAAAAATTTATTTAGATATAAATCAAAGT
1 ATAAAAATTTATTTAGATATAAATAAAAAT
* * *
3781026 ATAAAAACTTATTTGGATA-CAATAAAAAT
1 ATAAAAATTTATTTAGATATAAATAAAAAT
3781055 ATAAAAATTTATTTA
1 ATAAAAATTTATTTA
3781070 AAAAAAGAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 20 0.54
30 17 0.46
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.36
Consensus pattern (30 bp):
ATAAAAATTTATTTAGATATAAATAAAAAT
Found at i:3782022 original size:19 final size:20
Alignment explanation
Indices: 3781998--3782035 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
3781988 TAATAGATTA
3781998 AATATTTAACTT-TAAATTG
1 AATATTTAACTTATAAATTG
*
3782017 AATATTTAATTTATAAATT
1 AATATTTAACTTATAAATT
3782036 TTATACATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (20 bp):
AATATTTAACTTATAAATTG
Found at i:3794945 original size:18 final size:18
Alignment explanation
Indices: 3794896--3794943 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
3794886 GAAAATTACT
* *
3794896 ATTAAAATCAAGATCAAG
1 ATTAAAATTAAAATCAAG
3794914 ATTAAAATTAAAATCAA-
1 ATTAAAATTAAAATCAAG
*
3794931 ATTACAATTAAAA
1 ATTAAAATTAAAA
3794944 ATTTTTGGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.27
Consensus pattern (18 bp):
ATTAAAATTAAAATCAAG
Found at i:3795480 original size:15 final size:16
Alignment explanation
Indices: 3795460--3795506 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
3795450 ATAAGAAATT
3795460 AAAGATTTGCAAGAC-
1 AAAGATTTGCAAGACA
**
3795475 AAAGATTCACAAGACAA
1 AAAGATTTGCAAGAC-A
*
3795492 AAATATTTGCAAGAC
1 AAAGATTTGCAAGAC
3795507 TTTTAAATTC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 13 0.52
17 12 0.48
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (16 bp):
AAAGATTTGCAAGACA
Found at i:3795505 original size:32 final size:32
Alignment explanation
Indices: 3795441--3795506 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 32
3795431 TTCAAAGATT
*
3795441 CAAAGATTCATAAGAAATTAAAGATTTGCAAGA
1 CAAAGATTCACAAGAAA-TAAAGATTTGCAAGA
*
3795474 CAAAGATTCACAAGACAA-AAATATTTGCAAGA
1 CAAAGATTCACAAGA-AATAAAGATTTGCAAGA
3795506 C
1 C
3795507 TTTTAAATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
32 14 0.47
33 14 0.47
34 2 0.07
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.21
Consensus pattern (32 bp):
CAAAGATTCACAAGAAATAAAGATTTGCAAGA
Found at i:3795626 original size:34 final size:34
Alignment explanation
Indices: 3795616--3795681 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
3795606 AACTTTAGGT
3795616 TCACAAGAATTTCATATTCGTAAGAACTTCAAGC
1 TCACAAGAATTTCATATTCGTAAGAACTTCAAGC
* * *
3795650 TCACAAGAATTTCATATTTGCAAGAATTTCAA
1 TCACAAGAATTTCATATTCGTAAGAACTTCAA
3795682 ATTTGTAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (34 bp):
TCACAAGAATTTCATATTCGTAAGAACTTCAAGC
Found at i:3795742 original size:18 final size:18
Alignment explanation
Indices: 3795653--3795747 Score: 72
Period size: 17 Copynumber: 5.5 Consensus size: 18
3795643 TTCAAGCTCA
*
3795653 CAAGAA-TTTCATATTTG
1 CAAGAATTTTCAGATTTG
*
3795670 CAAGAA-TTTCAAATTTG
1 CAAGAATTTTCAGATTTG
* **
3795687 TAAGAATTTTCAGATTCA
1 CAAGAATTTTCAGATTTG
** * *
3795705 CAA-AAAATT-AGTTTTA
1 CAAGAATTTTCAGATTTG
*
3795721 CAAGAATTTTTAGATTTG
1 CAAGAATTTTCAGATTTG
3795739 CAAGAATTT
1 CAAGAATTT
3795748 AAAGCTTAAA
Statistics
Matches: 61, Mismatches: 14, Indels: 5
0.76 0.17 0.06
Matches are distributed among these distances:
16 8 0.13
17 29 0.48
18 24 0.39
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (18 bp):
CAAGAATTTTCAGATTTG
Found at i:3796139 original size:46 final size:46
Alignment explanation
Indices: 3795926--3796284 Score: 245
Period size: 46 Copynumber: 7.9 Consensus size: 46
3795916 ATTTCAAAGC
* * * *
3795926 TCACAGCCAAAA-TTCAAAGATTCTTATT-CAAAAATTTTAGAAAT
1 TCACATCCAAAATTTCAAAGATTCTCATTAAAAAAATTTTAGAATT
* * * *
3795970 TCACACCCAAAACTTCAAAGATTTTCATTCAAAAAAA-TTTAGGGA-T
1 TCACATCCAAAATTTCAAAGATTCTCATT-AAAAAAATTTTA-GAATT
** * * * ** ** * *
3796016 TCACGCCCAAAAGTT-AAAGATTTTTATT-CGAAAACCTAAGGATT
1 TCACATCCAAAATTTCAAAGATTCTCATTAAAAAAATTTTAGAATT
** * *
3796060 T-TTATCCAAAATTTCAAGGATTCACATTAAAAAAATTTTAGAATT
1 TCACATCCAAAATTTCAAAGATTCTCATTAAAAAAATTTTAGAATT
* **
3796105 TCACATCCAAAATTTTAAAGATTCTCATTTAAAAAAA-TTTAGGGTT
1 TCACATCCAAAATTTCAAAGATTCTCA-TTAAAAAAATTTTAGAATT
* ** * **
3796151 TCACAATCCAAAATTTCAAATATTCAT-ATTTGACAAATTTTAGGGTT
1 TCAC-ATCCAAAATTTCAAAGATTC-TCATTAAAAAAATTTTAGAATT
* * *
3796198 TCACAT-CAAAATTTCAAATATTCACATTAAAAAAATTTTAGAAAT
1 TCACATCCAAAATTTCAAAGATTCTCATTAAAAAAATTTTAGAATT
* * *
3796243 TCAAATCCAAAATTAT-AAAGATTCTCATTCAAAAGATTTTAG
1 TCACATCCAAAATT-TCAAAGATTCTCATTAAAAAAATTTTAG
3796285 TGATTTATGT
Statistics
Matches: 248, Mismatches: 51, Indels: 30
0.75 0.16 0.09
Matches are distributed among these distances:
43 15 0.06
44 24 0.10
45 73 0.29
46 86 0.35
47 49 0.20
48 1 0.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (46 bp):
TCACATCCAAAATTTCAAAGATTCTCATTAAAAAAATTTTAGAATT
Found at i:3796189 original size:93 final size:91
Alignment explanation
Indices: 3796063--3796284 Score: 241
Period size: 93 Copynumber: 2.4 Consensus size: 91
3796053 AAGGATTTTT
* *
3796063 ATCCAAAATTTCAAGGATTCACATTAAAAAAATTTTAGAATTTCACATCCAAAATTTTAAAGATT
1 ATCCAAAATTTCAAAGATTCACATTAAAAAAATTTTAGAATTTCACAT-CAAAATTTCAAAGATT
*
3796128 CTCATTTAAAAAAATTTAGGGTTTCACA
65 CACA-TTAAAAAAATTTAGGGTTTCACA
* * ** * ** *
3796156 ATCCAAAATTTCAAATATTCATATTTGACAAATTTTAGGGTTTCACATCAAAATTTCAAATATTC
1 ATCCAAAATTTCAAAGATTCACATTAAAAAAATTTTAGAATTTCACATCAAAATTTCAAAGATTC
***
3796221 ACATTAAAAAAATTTTAGAAATTCA-A
66 ACATTAAAAAAA-TTTAGGGTTTCACA
* * *
3796247 ATCCAAAATTAT-AAAGATTCTCATTCAAAAGATTTTAG
1 ATCCAAAATT-TCAAAGATTCACATTAAAAAAATTTTAG
3796285 TGATTTATGT
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
91 39 0.37
92 27 0.25
93 40 0.38
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.35
Consensus pattern (91 bp):
ATCCAAAATTTCAAAGATTCACATTAAAAAAATTTTAGAATTTCACATCAAAATTTCAAAGATTC
ACATTAAAAAAATTTAGGGTTTCACA
Found at i:3799999 original size:161 final size:159
Alignment explanation
Indices: 3799614--3800087 Score: 744
Period size: 153 Copynumber: 3.0 Consensus size: 159
3799604 AAAATTTTAC
* * *
3799614 CAAGTAATTAGTTGTTGGAAATGATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAA
1 CAAGTAATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAA
*
3799679 ATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGGGGCTCCGTCGTCGGA
66 ATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGA
* *
3799744 TTTATTAAAG---AAAAAAACAAAATCAT
131 TTAATTAAAGAAAAAAAAAACAAAATCAG
* *
3799770 C---CAATTAATTATTGGAAATTATTCTCAATTAACTCTAATACTTTTAGCAGAAAATTGAGAAA
1 CAAGTAATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAA
*
3799832 ATTCCCTCACCTCAAGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGA
66 ATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGA
3799897 TTAATTAAAGAAAAAAAAAATCAAAATCAG
131 TTAATTAAAGAAAAAAAAAA-CAAAATCAG
*
3799927 CAAAGTAATTAATTATCGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
1 C-AAGTAATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAA
* *
3799992 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTTTACTTGTAGAGGCTCCGTCGTCG
65 AATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTG-TTTCACTTGCAGAGGCTCCGTCGTCG
* *
3800057 GATTGATTAAAGAAAAAAGAAAAAAAAATCA
129 GATTAATTAAAGAAAAAA-AAAACAAAATCA
3800088 AGATCAAAAT
Statistics
Matches: 291, Mismatches: 17, Indels: 14
0.90 0.05 0.04
Matches are distributed among these distances:
153 128 0.44
156 8 0.03
157 9 0.03
161 94 0.32
162 48 0.16
163 4 0.01
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.28
Consensus pattern (159 bp):
CAAGTAATTAATTATTGGAAATTATTCTCAATTGACTCTAATACTTTTAGCAGAAAATTGAGAAA
ATTCCCTCACCTCAGGAGTATGCAAGAAAAACTACTGTTTCACTTGCAGAGGCTCCGTCGTCGGA
TTAATTAAAGAAAAAAAAAACAAAATCAG
Found at i:3800124 original size:1 final size:1
Alignment explanation
Indices: 3800120--3800150 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
3800110 AAAAAAATTC
3800120 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3800151 CCTGGAGCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3800127 original size:15 final size:14
Alignment explanation
Indices: 3800103--3800143 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 14
3800093 AAAATCAAAG
*
3800103 TCAAATAAAAAAAAT
1 TCAAA-AAAAAAAAA
3800118 TCAAAAAAAAAAAA
1 TCAAAAAAAAAAAA
3800132 --AAAAAAAAAAAA
1 TCAAAAAAAAAAAA
3800144 AAAAAAACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 12 0.48
14 8 0.32
15 5 0.20
ACGTcount: A:0.85, C:0.05, G:0.00, T:0.10
Consensus pattern (14 bp):
TCAAAAAAAAAAAA
Found at i:3800500 original size:20 final size:20
Alignment explanation
Indices: 3800471--3800516 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
3800461 GGAAGATTCA
*
3800471 CCGGATTCTGGAAATTTTCG
1 CCGGAATCTGGAAATTTTCG
***
3800491 CCGGAATCTGGGTTTTTTCG
1 CCGGAATCTGGAAATTTTCG
3800511 CCGGAA
1 CCGGAA
3800517 GTTGGCCGGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (20 bp):
CCGGAATCTGGAAATTTTCG
Found at i:3800559 original size:20 final size:20
Alignment explanation
Indices: 3800534--3800576 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
3800524 GGAAATTTGA
3800534 CGGTTTCTGGGATTCTTCGC
1 CGGTTTCTGGGATTCTTCGC
3800554 CGGTTTCTGGGATTCTTCGC
1 CGGTTTCTGGGATTCTTCGC
3800574 CGG
1 CGG
3800577 AAACTGGGCA
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:0.05, C:0.26, G:0.33, T:0.37
Consensus pattern (20 bp):
CGGTTTCTGGGATTCTTCGC
Found at i:3800583 original size:20 final size:20
Alignment explanation
Indices: 3800540--3800584 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3800530 TTGACGGTTT
***
3800540 CTGGGATTCTTCGCCGGTTT
1 CTGGGATTCTTCGCCGGAAA
3800560 CTGGGATTCTTCGCCGGAAA
1 CTGGGATTCTTCGCCGGAAA
3800580 CTGGG
1 CTGGG
3800585 CAGGTCACCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.24, G:0.33, T:0.31
Consensus pattern (20 bp):
CTGGGATTCTTCGCCGGAAA
Done.