Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 207 of 250
Found at i:64539289 original size:54 final size:54
Alignment explanation
Indices: 64539189--64539299 Score: 143
Period size: 54 Copynumber: 2.1 Consensus size: 54
64539179 AGCATGGTTG
* * *
64539189 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAGCCA
* * * *
64539243 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAAATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAGCCA
64539297 CCA
1 CCA
64539300 TGACGCTTCC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
54 31 0.63
55 18 0.37
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAGCCA
Found at i:64542314 original size:30 final size:30
Alignment explanation
Indices: 64542280--64542361 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
64542270 CCAATATCTC
64542280 GATACCCATATCTTTGACTTTCTAATATTT
1 GATACCCATATCTTTGACTTTCTAATATTT
* *
64542310 GATACCCATATCTTTGACTTTTTATTATTT
1 GATACCCATATCTTTGACTTTCTAATATTT
*
64542340 GATACCCATATCTTTGATTTTC
1 GATACCCATATCTTTGACTTTC
64542362 CATAAATATG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.24, C:0.20, G:0.07, T:0.49
Consensus pattern (30 bp):
GATACCCATATCTTTGACTTTCTAATATTT
Found at i:64545639 original size:12 final size:12
Alignment explanation
Indices: 64545618--64545648 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
64545608 AAAATACAAC
64545618 TTAATTTTTTTA
1 TTAATTTTTTTA
64545630 -TAATTTTTTTA
1 TTAATTTTTTTA
64545641 TTAATTTT
1 TTAATTTT
64545649 CCAACATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTAATTTTTTTA
Found at i:64550378 original size:7 final size:7
Alignment explanation
Indices: 64550366--64550390 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
64550356 ATTACATAGC
64550366 ATATAAT
1 ATATAAT
64550373 ATATAAT
1 ATATAAT
64550380 ATATAAT
1 ATATAAT
64550387 ATAT
1 ATAT
64550391 TATTAGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATAAT
Found at i:64552423 original size:21 final size:21
Alignment explanation
Indices: 64552399--64552467 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
64552389 CATAGGTGGC
64552399 CAAAATGTAAATTGAGGTAAA
1 CAAAATGTAAATTGAGGTAAA
* *
64552420 CAAAA-GTAGCTACTT-AGGT-GA
1 CAAAATGTA---AATTGAGGTAAA
*
64552441 CTAAAATGTAAACTGAGGTAAA
1 C-AAAATGTAAATTGAGGTAAA
64552463 CAAAA
1 CAAAA
64552468 GTGACTACTT
Statistics
Matches: 36, Mismatches: 5, Indels: 14
0.65 0.09 0.25
Matches are distributed among these distances:
20 5 0.14
21 15 0.42
22 10 0.28
23 6 0.17
ACGTcount: A:0.49, C:0.10, G:0.19, T:0.22
Consensus pattern (21 bp):
CAAAATGTAAATTGAGGTAAA
Found at i:64552452 original size:43 final size:43
Alignment explanation
Indices: 64552391--64552477 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 43
64552381 ATTTCGAACA
* *
64552391 TAGGTGGCCAAAATGTAAATTGAGGTAAACAAAAGT-AGCTACT
1 TAGGTGACCAAAATGTAAACTGAGGTAAACAAAAGTGA-CTACT
*
64552434 TAGGTGACTAAAATGTAAACTGAGGTAAACAAAAGTGACTACT
1 TAGGTGACCAAAATGTAAACTGAGGTAAACAAAAGTGACTACT
64552477 T
1 T
64552478 TAGTATTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 39 0.98
44 1 0.03
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (43 bp):
TAGGTGACCAAAATGTAAACTGAGGTAAACAAAAGTGACTACT
Found at i:64552610 original size:20 final size:20
Alignment explanation
Indices: 64552585--64552623 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
64552575 ACATTATTGA
64552585 TCTCCTAACTAATA-CAGATT
1 TCTCCTAAC-AATATCAGATT
*
64552605 TCTCCTGACAATATCAGAT
1 TCTCCTAACAATATCAGAT
64552624 GAGATGACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (20 bp):
TCTCCTAACAATATCAGATT
Found at i:64558031 original size:39 final size:39
Alignment explanation
Indices: 64557977--64558102 Score: 198
Period size: 39 Copynumber: 3.2 Consensus size: 39
64557967 TTCAGTGATG
* *
64557977 TATATCTGAACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
64558016 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
64558055 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
64558094 TATGTCCGG
1 TATATCCGG
64558103 GCTAAAGTCC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:64558116 original size:39 final size:39
Alignment explanation
Indices: 64557977--64558140 Score: 188
Period size: 39 Copynumber: 4.2 Consensus size: 39
64557967 TTCAGTGATG
* * * *
64557977 TATATCTGAACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* *
64558016 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
*
64558055 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * * * * *
64558094 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAAT
64558133 TATA-CCGG
1 TATATCCGG
64558141 GTTTAAATTC
Statistics
Matches: 111, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
38 9 0.08
39 102 0.92
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:64558155 original size:78 final size:78
Alignment explanation
Indices: 64557993--64558167 Score: 187
Period size: 78 Copynumber: 2.3 Consensus size: 78
64557983 TGAACTTAGG
* ** *
64557993 GTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTAT
1 GTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGAGCTGGAATTAT
*
64558058 ATCCGGACTTAAG
66 ATCCGGACTTAAA
* * * *
64558071 GTCCGCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGGCT-TCGAGCTGGTATT
1 GTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGGCTAT-GAGCTGGAATT
**
64558134 ATA-CCGGGTTTAAA
64 ATATCCGGACTTAAA
*
64558148 TTCCCGCAGGCT-TGTGCTGG
1 GT-CCGCAGGCTATGTGCTGG
64558168 TAATTGGTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
77 21 0.26
78 60 0.74
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (78 bp):
GTCCGCAGGCTATGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGAGCTGGAATTAT
ATCCGGACTTAAA
Found at i:64558167 original size:38 final size:38
Alignment explanation
Indices: 64557995--64558172 Score: 148
Period size: 39 Copynumber: 4.6 Consensus size: 38
64557985 AACTTAGGGT
* **
64557995 CCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGT-
1 CCGCAGGCTATGTGCTGGAATTATA-CCGG-GTTAAAGTC
* *
64558034 CCGCAGGCTATGTGCTGGAATTATATCCGGACTTAAGGT-
1 CCGCAGGCTATGTGCTGGAATTATA-CCGG-GTTAAAGTC
* * * *
64558073 CCGCAGGCTACGTGCTGGAAATATGTCCGGGCTAAAGTC
1 CCGCAGGCTATGTGCTGGAATTAT-ACCGGGTTAAAGTC
* * *
64558112 CCGCAGGCT-TCGAGCTGGTATTATACCGGGTTTAAATTC
1 CCGCAGGCTAT-GTGCTGGAATTATACCGGG-TTAAAGTC
64558151 CCGCAGGCT-TGTGCTGGTAATT
1 CCGCAGGCTATGTGCTGG-AATT
64558173 GGTTTCAAGT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 16 0.14
39 102 0.86
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (38 bp):
CCGCAGGCTATGTGCTGGAATTATACCGGGTTAAAGTC
Found at i:64560413 original size:53 final size:53
Alignment explanation
Indices: 64560272--64560422 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
64560262 ATAAGTGCGC
* **
64560272 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
64560325 CCGTATAAGACCATAGCTAGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
64560378 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
64560423 ACCGTGTAAG
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:64561805 original size:23 final size:23
Alignment explanation
Indices: 64561774--64561817 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
64561764 ATTGAGTATT
* *
64561774 AAAAGTATATATATAATATAGAC
1 AAAAATATATACATAATATAGAC
*
64561797 AAAAATATATGCATAATATAG
1 AAAAATATATACATAATATAG
64561818 TATTGAAAGT
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:0.57, C:0.05, G:0.09, T:0.30
Consensus pattern (23 bp):
AAAAATATATACATAATATAGAC
Found at i:64561886 original size:11 final size:11
Alignment explanation
Indices: 64561872--64561897 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
64561862 TGATATTAAA
64561872 AATATATACAT
1 AATATATACAT
64561883 AATATATACAT
1 AATATATACAT
64561894 AATA
1 AATA
64561898 GAAATAATAA
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:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (11 bp):
AATATATACAT
Found at i:64561976 original size:21 final size:22
Alignment explanation
Indices: 64561952--64562010 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
64561942 AAATATATAC
* *
64561952 ATATATATATATATTAAAA-AT
1 ATATACATATATAATAAAACAT
64561973 ATATACATATATAATAAAACAT
1 ATATACATATATAATAAAACAT
64561995 ATACTA-ATA-ATAATAA
1 ATA-TACATATATAATAA
64562011 TAATAATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 24 0.71
22 8 0.24
23 2 0.06
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATACATATATAATAAAACAT
Found at i:64561992 original size:71 final size:69
Alignment explanation
Indices: 64561864--64562015 Score: 157
Period size: 71 Copynumber: 2.2 Consensus size: 69
64561854 GAATAATGTG
* * * *
64561864 ATATTAAAAATATATACATAATATATACATAATAGAAATAATAATAATGTTACAAAACA-ATTAT
1 ATATTAAAAATATATACATAATATATACATAATAAAAATAATAATAATATAACAAAACATA-TAC
64561928 TAATA
65 TAATA
* * *
64561933 ATATTACATAAATATATACAT-ATATATATATATTAAAAATATATACAT-ATATAATAAAACATA
1 ATATTA-A-AAATATATACATAATATATACATAATAAAAATA-ATA-ATAATATAACAAAACATA
64561996 TACTAATA
62 TACTAATA
* *
64562004 ATAATAATAATA
1 ATATTAAAAATA
64562016 ATAATATTAA
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
69 10 0.14
70 19 0.28
71 37 0.54
72 3 0.04
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (69 bp):
ATATTAAAAATATATACATAATATATACATAATAAAAATAATAATAATATAACAAAACATATACT
AATA
Found at i:64562005 original size:3 final size:3
Alignment explanation
Indices: 64561999--64562199 Score: 61
Period size: 3 Copynumber: 67.7 Consensus size: 3
64561989 AAACATATAC
* *
64561999 TAA TAA TAA TAA TAA TAA TAA TAT TAA -AA TACA -AA -AA GAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* * * *
64562041 T-A TAA T-A TAA TAA AAA TAT TAA -AA TAA -AG TAA TTAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
*
64562083 TAC T-A TATA TAA -ATA TATA TACA T-A TACA TATA TAA TAA -AA -AA
1 TAA TAA TA-A TAA TA-A TA-A TA-A TAA TA-A TA-A TAA TAA TAA TAA
* * * * *
64562126 T-A TCCAC TAA TATA TAA TAA TAA TAA TAA TAA AACA TAA CAG TAA CAA
1 TAA T--AA TAA TA-A TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* * *
64562174 TAA TGA TAA TAG TAA TAG TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
64562200 TCAACAAATA
Statistics
Matches: 147, Mismatches: 30, Indels: 42
0.67 0.14 0.19
Matches are distributed among these distances:
2 24 0.16
3 97 0.66
4 25 0.17
5 1 0.01
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:64568130 original size:20 final size:20
Alignment explanation
Indices: 64568105--64568146 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
64568095 TAGAAATAGT
*
64568105 AATTAAAATAATTTTTTTAA
1 AATTAAAATAATATTTTTAA
* *
64568125 AATTAAACTGATATTTTTAA
1 AATTAAAATAATATTTTTAA
64568145 AA
1 AA
64568147 AATATATAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
AATTAAAATAATATTTTTAA
Found at i:64570409 original size:5 final size:5
Alignment explanation
Indices: 64570395--64570428 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
64570385 TATCTTTTAT
64570395 TATT- TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA
64570429 AAAATTGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:64570531 original size:55 final size:55
Alignment explanation
Indices: 64570472--64570583 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
64570462 TTATAAACCT
64570472 AATATTTATATTCTAATTTATTTACTTGAAAACTCTAATATATTATCATAAGCCC
1 AATATTTATATTCTAATTTATTTACTTGAAAACTCTAATATATTATCATAAGCCC
64570527 AATATTTATATTCTAATTTATTTACTTGAAAACTCTAATATATTATCATAAGCCC
1 AATATTTATATTCTAATTTATTTACTTGAAAACTCTAATATATTATCATAAGCCC
64570582 AA
1 AA
64570584 ACCCAAAATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.43
Consensus pattern (55 bp):
AATATTTATATTCTAATTTATTTACTTGAAAACTCTAATATATTATCATAAGCCC
Found at i:64571273 original size:28 final size:30
Alignment explanation
Indices: 64571233--64571291 Score: 68
Period size: 28 Copynumber: 2.0 Consensus size: 30
64571223 GTTACTTATT
* *
64571233 TAAAATTTAAATTTAAT-TATA-AAATATA
1 TAAAATATAAATTAAATATATATAAATATA
* *
64571261 TAAAATATCAATTAAATATATATATATATA
1 TAAAATATAAATTAAATATATATAAATATA
64571291 T
1 T
64571292 TTTTAATGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
28 14 0.56
29 4 0.16
30 7 0.28
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (30 bp):
TAAAATATAAATTAAATATATATAAATATA
Found at i:64571997 original size:21 final size:21
Alignment explanation
Indices: 64571952--64572003 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
64571942 ATCACATATC
* * * *
64571952 ATATATGTATTCATAGTTTAT
1 ATATATGTATTAATAATTAAA
64571973 ATATATGTATTAATAATTAAA
1 ATATATGTATTAATAATTAAA
64571994 ATATTATGTA
1 ATA-TATGTA
64572004 ATATTATATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (21 bp):
ATATATGTATTAATAATTAAA
Found at i:64572563 original size:17 final size:17
Alignment explanation
Indices: 64572541--64572578 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
64572531 TTTAGAATTT
**
64572541 TTTTTAAAAATTTATAA
1 TTTTTAAAAAAATATAA
64572558 TTTTTAAAAAAATATAA
1 TTTTTAAAAAAATATAA
64572575 TTTT
1 TTTT
64572579 GAAATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTTAAAAAAATATAA
Found at i:64582396 original size:3 final size:3
Alignment explanation
Indices: 64582388--64582420 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
64582378 ATTAATGAAG
64582388 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
64582421 TTTAAGATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:64589177 original size:20 final size:22
Alignment explanation
Indices: 64589138--64589180 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
64589128 TATATGAAAA
*
64589138 TTATTTTAAACTCTTTTATTAT
1 TTATTGTAAACTCTTTTATTAT
64589160 TTATTGTAAAC-C-TTTATTAT
1 TTATTGTAAACTCTTTTATTAT
64589180 T
1 T
64589181 ATTAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 1 0.05
22 10 0.50
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.60
Consensus pattern (22 bp):
TTATTGTAAACTCTTTTATTAT
Found at i:64589546 original size:44 final size:44
Alignment explanation
Indices: 64589445--64589552 Score: 132
Period size: 45 Copynumber: 2.5 Consensus size: 44
64589435 ATATATATTA
* * *
64589445 ATTATTATAAATTGTTTTA--TATTCTTTACTTTAAATTGCCTT
1 ATTATTTTAAATTGTTTTATGTATTATTTACTTTAAACTGCCTT
*
64589487 TTTATTTTAAAATTGTTTTATGTATTATTTA-TTTAAAACTGCCTT
1 ATTATTTT-AAATTGTTTTATGTATTATTTACTTT-AAACTGCCTT
*
64589532 ATTATTTTGAATTGTTTTATG
1 ATTATTTTAAATTGTTTTATG
64589553 CCACATTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
42 6 0.11
43 11 0.20
44 15 0.27
45 24 0.43
ACGTcount: A:0.28, C:0.06, G:0.07, T:0.58
Consensus pattern (44 bp):
ATTATTTTAAATTGTTTTATGTATTATTTACTTTAAACTGCCTT
Found at i:64600934 original size:15 final size:15
Alignment explanation
Indices: 64600914--64600964 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
64600904 GTTGTGTAGG
64600914 TTATATTTTAATTAT
1 TTATATTTTAATTAT
* ** *
64600929 TTATATTTGAGGT-G
1 TTATATTTTAATTAT
*
64600943 TTAGATTTTAATTAT
1 TTATATTTTAATTAT
64600958 TTATATT
1 TTATATT
64600965 ATTATAATAT
Statistics
Matches: 25, Mismatches: 10, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (15 bp):
TTATATTTTAATTAT
Found at i:64603040 original size:29 final size:27
Alignment explanation
Indices: 64603005--64603058 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
64602995 CCATAACAGA
*
64603005 GAATCCCGTGAAAAAATTTCGAAACATGG
1 GAATCCCGAG-AAAAATTTC-AAACATGG
*
64603034 GAATCCCGAGATAAATTTCAAACAT
1 GAATCCCGAGAAAAATTTCAAACAT
64603059 CCCATCTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 8 0.35
29 9 0.39
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.22
Consensus pattern (27 bp):
GAATCCCGAGAAAAATTTCAAACATGG
Found at i:64620554 original size:24 final size:23
Alignment explanation
Indices: 64620517--64620561 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
64620507 TTAAATCCAA
* *
64620517 AAAATAAAATGACTATATTTCTC
1 AAAATAAAAGGACTAAATTTCTC
64620540 AAAATAAAAGGGACTAAATTTC
1 AAAATAAAA-GGACTAAATTTC
64620562 AAATGTACGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (23 bp):
AAAATAAAAGGACTAAATTTCTC
Found at i:64625863 original size:11 final size:11
Alignment explanation
Indices: 64625849--64625898 Score: 68
Period size: 11 Copynumber: 4.7 Consensus size: 11
64625839 TTTCAATATT
64625849 CTCTCAAATTC
1 CTCTCAAATTC
64625860 CTCTCAAA-T-
1 CTCTCAAATTC
*
64625869 CTCTCAAATTT
1 CTCTCAAATTC
*
64625880 CTCTTAAATTC
1 CTCTCAAATTC
64625891 CTCTCAAA
1 CTCTCAAA
64625899 ACTCTCGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.24
10 2 0.06
11 24 0.71
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.38
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:64625873 original size:20 final size:21
Alignment explanation
Indices: 64625841--64625898 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
64625831 CTTCAATCTT
64625841 TCAATATTCTCTCAAATTCCTC
1 TCAA-ATTCTCTCAAATTCCTC
*
64625863 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTCCTC
*
64625883 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
64625899 ACTCTCGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 18 0.56
21 2 0.06
22 12 0.38
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTCCTC
Found at i:64627054 original size:7 final size:7
Alignment explanation
Indices: 64627042--64627068 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
64627032 TAGTGGATTC
64627042 GTATTTA
1 GTATTTA
64627049 GTATTTA
1 GTATTTA
64627056 GTATTTA
1 GTATTTA
64627063 GTATTT
1 GTATTT
64627069 TTTATTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (7 bp):
GTATTTA
Found at i:64627709 original size:18 final size:18
Alignment explanation
Indices: 64627686--64627728 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
64627676 TGCCAGGTAC
*
64627686 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
64627704 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
64627722 GTTTCCT
1 GTATCCT
64627729 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:64628196 original size:58 final size:58
Alignment explanation
Indices: 64628134--64628312 Score: 174
Period size: 58 Copynumber: 3.1 Consensus size: 58
64628124 CTTTTTATAT
*
64628134 TATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTACTTTTA
1 TATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACTTTTA
* * * * * *
64628192 TATTT--T-TAATAAAATAGAAA--TTATTTTAAATAAGGCAACATTTTGAATATT--TTTATA
1 TATTTCATGTAATTAGATA-AAAGGTTGTTTTAAATAAAG-TA-ATTAT-AAT-TTACTTT-TA
*
64628249 TTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAATTAATTATAATTTACTTTTA
1 -TATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACTTTTA
64628308 TATTT
1 TATTT
64628313 TTAATAAAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 28
0.70 0.10 0.21
Matches are distributed among these distances:
54 13 0.14
55 9 0.10
56 11 0.12
57 5 0.05
58 19 0.20
59 5 0.05
60 11 0.12
61 9 0.10
62 12 0.13
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.48
Consensus pattern (58 bp):
TATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACTTTTA
Found at i:64628316 original size:116 final size:116
Alignment explanation
Indices: 64628112--64628374 Score: 474
Period size: 116 Copynumber: 2.3 Consensus size: 116
64628102 TATTTGTACA
*
64628112 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* *
64628177 TGTAATTTACTTTTATATTTTTAATAAAAT-AGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGA-AAATTATTTTAAATAAAGC
*
64628228 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAATTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
64628293 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
66 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
64628344 AACATTTTGAATATTTTTATATTATTTCATG
1 AACATTTTGAATATTTTTATATTATTTCATG
64628375 CAATAGAATA
Statistics
Matches: 142, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
116 141 0.99
117 1 0.01
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
Found at i:64628341 original size:54 final size:53
Alignment explanation
Indices: 64628161--64628341 Score: 150
Period size: 54 Copynumber: 3.2 Consensus size: 53
64628151 TAAAAGGTTG
* *
64628161 TTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATAGAAATTA
1 TTTTAAATAAACTAATTATAATTTACTTTTATATTTTTAATAAAATA-AAATTA
* * * * * *
64628215 TTTTAAATAAGGCAACATTTTGAATATT--TTTATATTATTTCATGTAATTAGATAAAAGGTTG
1 TTTTAAATAA-ACTA-ATTAT-AAT-TTACTTT-TA-TATTT--T-TAATAAAATAAAA--TTA
*
64628277 TTTTAAATAAATTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
1 TTTTAAATAAACTAATTATAATTTACTTTTATATTTTTAATAAAAT-AAAATTA
64628331 TTTTAAATAAA
1 TTTTAAATAAA
64628342 GCAACATTTT
Statistics
Matches: 99, Mismatches: 14, Indels: 28
0.70 0.10 0.20
Matches are distributed among these distances:
54 23 0.23
55 8 0.08
56 12 0.12
57 5 0.05
58 14 0.14
59 5 0.05
60 11 0.11
61 9 0.09
62 12 0.12
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.48
Consensus pattern (53 bp):
TTTTAAATAAACTAATTATAATTTACTTTTATATTTTTAATAAAATAAAATTA
Found at i:64631623 original size:126 final size:126
Alignment explanation
Indices: 64631407--64631930 Score: 800
Period size: 126 Copynumber: 4.2 Consensus size: 126
64631397 GAAACCACTA
*
64631407 TAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGTTTGAA
1 TAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCTTGAA
*** * *
64631472 GCGTTTTTGACACTATTTATGCAGACACGTCTTCTCAAAATTATTTTTTCAAAGACCACTA
66 GCGTTTTTGACACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTTCAAAGACTACTG
* * * * *
64631533 TAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGCAATTTTGTTGAAAATGCATCCTGCTTGAA
1 TAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCTTGAA
* *
64631598 GCGTTTTT-ACCACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTTCAGAGACTATTG
66 GCGTTTTTGA-CACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTTCAAAGACTACTG
* *
64631659 TAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTGCTTGAA
1 TAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCTTGAA
* *
64631724 GCGTTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTT-AAGATACTACTG
66 GCGTTTTTGACACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTTCAA-AGACTACTG
* * *
64631785 TAGCAAAAGAGCGTCTACGTGGGAGCTTCTTTCAGTACTTTTACTGACAATGCATCCTGCTTGAA
1 TAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCTTGAA
* * * *
64631850 GTGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAATTTATTTTTTCAGAGACTACTG
66 GCGTTTTTGACACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTTCAAAGACTACTG
64631911 TAGCAAAAGAGCGTCCACGT
1 TAGCAAAAGAGCGTCCACGT
64631931 AGAAGCTGTT
Statistics
Matches: 361, Mismatches: 33, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
125 2 0.01
126 357 0.99
127 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (126 bp):
TAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCTTGAA
GCGTTTTTGACACTATTTGCACAGACACGTCTTCTCAAAATTATTTTTTCAAAGACTACTG
Found at i:64632033 original size:15 final size:15
Alignment explanation
Indices: 64632013--64632042 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
64632003 TTTCTTAAAT
64632013 ACCCTAAAACCCTAA
1 ACCCTAAAACCCTAA
*
64632028 ACCCTAAAATCCTAA
1 ACCCTAAAACCCTAA
64632043 TCTAATTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (15 bp):
ACCCTAAAACCCTAA
Found at i:64632216 original size:96 final size:97
Alignment explanation
Indices: 64632017--64632222 Score: 251
Period size: 96 Copynumber: 2.1 Consensus size: 97
64632007 TTAAATACCC
* * * *
64632017 TAAAACCCTAAACCCTAAAATCCTAATCTAATTTTATTTAAATTTATAATTAATTTACTCAAGTA
1 TAAAACCCTAAACACTAAAATCCTAATCTAATTTTATTTAAAATTATAATTAATTTAATCAAGCA
* *
64632082 ATCCTAAACCCTAATTTATTTGATTTTTTCCT
66 AACCTAAACCCTAATTTATTTAATTTTTTCCT
* *
64632114 TAAAAACCATAAACACT-AAA-CCATAATCTAA-TTT-TTTAAAATTAGTAATTAATTTAATTAA
1 T-AAAACCCTAAACACTAAAATCC-TAATCTAATTTTATTTAAAATTA-TAATTAATTTAATCAA
*
64632175 -CAAACACTAAACCTTAATTTATTTAATTTTTTTCCT
63 GCAAAC-CTAAACCCTAATTTATTTAA-TTTTTTCCT
64632211 TAAAACCCTAAA
1 TAAAACCCTAAA
64632223 ATTTAAAAAC
Statistics
Matches: 94, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
95 12 0.13
96 47 0.50
97 22 0.23
98 13 0.14
ACGTcount: A:0.42, C:0.17, G:0.01, T:0.40
Consensus pattern (97 bp):
TAAAACCCTAAACACTAAAATCCTAATCTAATTTTATTTAAAATTATAATTAATTTAATCAAGCA
AACCTAAACCCTAATTTATTTAATTTTTTCCT
Found at i:64632233 original size:16 final size:17
Alignment explanation
Indices: 64632212--64632253 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
64632202 TTTTTTCCTT
64632212 AAAACCCTAAAATT-TA
1 AAAACCCTAAAATTCTA
*
64632228 AAAACCC-AAAATTCTC
1 AAAACCCTAAAATTCTA
64632244 AAAACCCTAA
1 AAAACCCTAA
64632254 CCCTAATTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 15 0.65
17 2 0.09
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAACCCTAAAATTCTA
Found at i:64638919 original size:25 final size:26
Alignment explanation
Indices: 64638885--64638933 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
64638875 TTGGGAAGCC
64638885 TTTGTGGCTAATATTGT-GAAAAGTT
1 TTTGTGGCTAATATTGTGGAAAAGTT
*
64638910 TTTGTGGCTAATCTTGTGGAAAAG
1 TTTGTGGCTAATATTGTGGAAAAG
64638934 CCTTTATGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.27, C:0.06, G:0.27, T:0.41
Consensus pattern (26 bp):
TTTGTGGCTAATATTGTGGAAAAGTT
Found at i:64641054 original size:18 final size:18
Alignment explanation
Indices: 64641031--64641072 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
64641021 GTTCAAAGTG
64641031 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
64641049 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
64641067 TAATTA
1 TAATTA
64641073 GAAACCTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:64647532 original size:19 final size:18
Alignment explanation
Indices: 64647508--64647548 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
64647498 ATTTTTCAAA
64647508 AAAATTAAAAAAAAATTGT
1 AAAATT-AAAAAAAATTGT
*
64647527 AAAATTATAAAAAATTGT
1 AAAATTAAAAAAAATTGT
64647545 AAAA
1 AAAA
64647549 ATGGTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (18 bp):
AAAATTAAAAAAAATTGT
Found at i:64647540 original size:18 final size:18
Alignment explanation
Indices: 64647517--64647587 Score: 65
Period size: 18 Copynumber: 3.8 Consensus size: 18
64647507 AAAAATTAAA
64647517 AAAAAATTGTAAAATTAT
1 AAAAAATTGTAAAATTAT
64647535 AAAAAATTGTAAAAATGGTA-
1 AAAAAATTGT-AAAAT--TAT
*
64647555 AAAAAATTATTAAAA-TAT
1 AAAAAATT-GTAAAATTAT
*
64647573 TAAAAATATGTAAAA
1 AAAAAAT-TGTAAAA
64647588 AAAAAGTATT
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
17 2 0.05
18 21 0.48
19 6 0.14
20 12 0.27
21 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (18 bp):
AAAAAATTGTAAAATTAT
Found at i:64647561 original size:30 final size:30
Alignment explanation
Indices: 64647527--64647590 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
64647517 AAAAAATTGT
64647527 AAAATTATAAAAA-ATTGTAAAAAT-GGTAAA
1 AAAATTATAAAAATA-T-TAAAAATAGGTAAA
* *
64647557 AAAATTATTAAAATATTAAAAATATGTAAA
1 AAAATTATAAAAATATTAAAAATAGGTAAA
64647587 AAAA
1 AAAA
64647591 AAGTATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 7 0.23
30 22 0.73
31 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (30 bp):
AAAATTATAAAAATATTAAAAATAGGTAAA
Found at i:64647576 original size:20 final size:20
Alignment explanation
Indices: 64647516--64647578 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
64647506 AAAAAATTAA
* *
64647516 AAAAAAATTGTAAAATTA-T
1 AAAAAAATTATAAAAATATT
* **
64647535 -AAAAAATTGTAAAAATGGT
1 AAAAAAATTATAAAAATATT
*
64647554 AAAAAAATTATTAAAATATT
1 AAAAAAATTATAAAAATATT
64647574 AAAAA
1 AAAAA
64647579 TATGTAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 15 0.42
19 1 0.03
20 20 0.56
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (20 bp):
AAAAAAATTATAAAAATATT
Found at i:64647599 original size:24 final size:23
Alignment explanation
Indices: 64647566--64647612 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
64647556 AAAAATTATT
64647566 AAAATATTAAAAATATGTAAAAA
1 AAAATATTAAAAATATGTAAAAA
* *
64647589 AAAAGTATTAAAAATTTTTAAAAA
1 AAAA-TATTAAAAATATGTAAAAA
64647613 TTTTGTGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (23 bp):
AAAATATTAAAAATATGTAAAAA
Found at i:64648989 original size:11 final size:11
Alignment explanation
Indices: 64648932--64649000 Score: 50
Period size: 11 Copynumber: 6.4 Consensus size: 11
64648922 ACAATATCCA
*
64648932 AAAATAATAAC
1 AAAATAACAAC
* * *
64648943 AATATAATAGC
1 AAAATAACAAC
* *
64648954 AAAATGACAAT
1 AAAATAACAAC
*
64648965 AAAATAACATC
1 AAAATAACAAC
*
64648976 AAAATAAAAAC
1 AAAATAACAAC
*
64648987 -AAACAACAAC
1 AAAATAACAAC
64648997 AAAA
1 AAAA
64649001 CAGCATTGAA
Statistics
Matches: 43, Mismatches: 14, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
10 8 0.19
11 35 0.81
ACGTcount: A:0.70, C:0.13, G:0.03, T:0.14
Consensus pattern (11 bp):
AAAATAACAAC
Found at i:64651414 original size:4 final size:4
Alignment explanation
Indices: 64651405--64651451 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
64651395 TCAATGTAAA
* * *
64651405 ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC GCTC GCTC GCTC ACT
1 ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACTC ACT
64651452 TTTTATCTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.19, C:0.49, G:0.06, T:0.26
Consensus pattern (4 bp):
ACTC
Found at i:64653304 original size:19 final size:19
Alignment explanation
Indices: 64653240--64653304 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 19
64653230 AAATATAATT
64653240 TTTTTAAAATATAACTTTTGGAA
1 TTTTTAAAA-AT-A-TTTT-GAA
*
64653263 TTTTTATAAATATTTTGAA
1 TTTTTAAAAATATTTTGAA
*
64653282 -TTTTAAAAAT-TGTTTTAA
1 TTTTTAAAAATAT-TTTGAA
64653300 TTTTT
1 TTTTT
64653305 TTAATTTCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 1 0.03
18 14 0.38
19 7 0.19
20 4 0.11
21 1 0.03
22 2 0.05
23 8 0.22
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (19 bp):
TTTTTAAAAATATTTTGAA
Found at i:64653980 original size:194 final size:192
Alignment explanation
Indices: 64653637--64654011 Score: 511
Period size: 194 Copynumber: 1.9 Consensus size: 192
64653627 CAATTGTAAA
* *
64653637 TATTGGTAATGTTATTGATTGAGTTGGTGTCACAAGTCAACTCAACACTAACTTAAGATTGATGA
1 TATTGATAATGTTATTGATTGAGTTGGTGTCACAAGTCAACTCAACACTAACTCAAGATTGATGA
* * **
64653702 CAACATCATGATAAACAATTGTAGTACATTAAGTATTCTTAATATGATGTATTTATGTGGTTAAA
66 CAACATCACGATAAACAATTGTAGTACATTAAGTATTATTAATATGATGTATTTACATGGTTAAA
* *
64653767 TTTCATTTTACTCACAATTTAATC-AATTTTAATCATTTTAATATCGTACATATCTATTGTGTTG
131 TTTCATTTTACTCACAATTTAATCGAATTTT--T-ATTTTAAAATCATACATATCTATTGTGTTG
* * * *
64653831 TATTGATACTGTTGTTGATTGAGTTGGTGTCACAAGTGAACAT-AACATTAACTCAAGATTGATG
1 TATTGATAATGTTATTGATTGAGTTGGTGTCACAAGTCAAC-TCAACACTAACTCAAGATTGATG
* * ** * * * *
64653895 CCAACGTCACGATGGACAATTGTAGTGCATTTAGTATTATTAATGTGATGTATTTACATGTTTAA
65 ACAACATCACGATAAACAATTGTAGTACATTAAGTATTATTAATATGATGTATTTACATGGTTAA
*
64653960 ATTTTATTTTACTCACAATTTAATCGAATTTTTATTTTAAAATCATACATAT
130 ATTTCATTTTACTCACAATTTAATCGAATTTTTATTTTAAAATCATACATAT
64654012 TTCATATGTT
Statistics
Matches: 158, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
192 17 0.11
193 1 0.01
194 133 0.84
195 7 0.04
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (192 bp):
TATTGATAATGTTATTGATTGAGTTGGTGTCACAAGTCAACTCAACACTAACTCAAGATTGATGA
CAACATCACGATAAACAATTGTAGTACATTAAGTATTATTAATATGATGTATTTACATGGTTAAA
TTTCATTTTACTCACAATTTAATCGAATTTTTATTTTAAAATCATACATATCTATTGTGTTG
Found at i:64654424 original size:11 final size:11
Alignment explanation
Indices: 64654406--64654449 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
64654396 AAACATTAAC
64654406 AATAAAATAGT
1 AATAAAATAGT
* *
64654417 AGTAAAATAAT
1 AATAAAATAGT
*
64654428 AATGAAATAGT
1 AATAAAATAGT
*
64654439 AACAAAATAGT
1 AATAAAATAGT
64654450 GACAAAAAGT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.61, C:0.02, G:0.11, T:0.25
Consensus pattern (11 bp):
AATAAAATAGT
Found at i:64659724 original size:20 final size:20
Alignment explanation
Indices: 64659695--64659733 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
64659685 CGTCAACAAA
64659695 AAAAGATTTTTTCAAAAAAT
1 AAAAGATTTTTTCAAAAAAT
* *
64659715 AAAAGTTTTTTTTAAAAAA
1 AAAAGATTTTTTCAAAAAA
64659734 AAAGTAAAAT
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:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAAGATTTTTTCAAAAAAT
Found at i:64659831 original size:18 final size:20
Alignment explanation
Indices: 64659808--64659852 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
64659798 ACAAAATTAA
64659808 AAAAATTCAAAAAT-TAT-T
1 AAAAATTCAAAAATGTATAT
*
64659826 AAAAATTCTAAAATGTATAT
1 AAAAATTCAAAAATGTATAT
64659846 AAAAATT
1 AAAAATT
64659853 TTAAATGTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 13 0.54
19 3 0.12
20 8 0.33
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAAATTCAAAAATGTATAT
Found at i:64663963 original size:18 final size:19
Alignment explanation
Indices: 64663942--64663995 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
64663932 TATTAACTTT
64663942 AATATTGTTATACTTTA-G
1 AATATTGTTATACTTTATG
64663960 AATATT-TTAATTACTTTATG
1 AATATTGTT-A-TACTTTATG
*
64663980 AAT-TTGTTATATTTTA
1 AATATTGTTATACTTTA
64663996 ATATTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
17 2 0.06
18 13 0.42
19 10 0.32
20 6 0.19
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (19 bp):
AATATTGTTATACTTTATG
Found at i:64666083 original size:20 final size:21
Alignment explanation
Indices: 64666046--64666103 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
64666036 GAAAATTAAA
*
64666046 AATAAAATGAAAATGGGAAAG
1 AATAAAATGAAAAAGGGAAAG
64666067 AATAAAA-GAAAAAGGGAAAAG
1 AATAAAATGAAAAAGGG-AAAG
* *
64666088 AGTGAAATAGAAAAAG
1 AATAAAAT-GAAAAAG
64666104 AGATTATGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 8 0.26
21 16 0.52
23 7 0.23
ACGTcount: A:0.66, C:0.00, G:0.24, T:0.10
Consensus pattern (21 bp):
AATAAAATGAAAAAGGGAAAG
Found at i:64666088 original size:21 final size:20
Alignment explanation
Indices: 64666046--64666085 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
64666036 GAAAATTAAA
*
64666046 AATAAAATGAAAATGGGAAAG
1 AATAAAA-GAAAAAGGGAAAG
64666067 AATAAAAGAAAAAGGGAAA
1 AATAAAAGAAAAAGGGAAA
64666086 AGAGTGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.68, C:0.00, G:0.23, T:0.10
Consensus pattern (20 bp):
AATAAAAGAAAAAGGGAAAG
Found at i:64667463 original size:15 final size:15
Alignment explanation
Indices: 64667416--64667463 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
64667406 ACATAAGTGA
*
64667416 TTAAAACATAAC-AT
1 TTAAAATATAACTAT
* * *
64667430 TTCAAATATAAATAA
1 TTAAAATATAACTAT
64667445 TTAAAATATAACTAT
1 TTAAAATATAACTAT
64667460 TTAA
1 TTAA
64667464 TCATATAACC
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.35
Consensus pattern (15 bp):
TTAAAATATAACTAT
Found at i:64668280 original size:18 final size:19
Alignment explanation
Indices: 64668252--64668291 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
64668242 ATGAAAGTAA
*
64668252 GATTGTATTTGAAATGGAT
1 GATTGTATTTGAAATGAAT
*
64668271 GATTGT-TTTGATATGAAT
1 GATTGTATTTGAAATGAAT
64668289 GAT
1 GAT
64668292 ATTTATGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (19 bp):
GATTGTATTTGAAATGAAT
Found at i:64679158 original size:17 final size:18
Alignment explanation
Indices: 64679127--64679160 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
64679117 AATTCACGCT
64679127 TTTTGCCCTTAAATTTAC
1 TTTTGCCCTTAAATTTAC
*
64679145 TTTTG-CCTTCAATTTA
1 TTTTGCCCTTAAATTTA
64679161 ATCCCTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.21, G:0.06, T:0.53
Consensus pattern (18 bp):
TTTTGCCCTTAAATTTAC
Found at i:64685565 original size:19 final size:19
Alignment explanation
Indices: 64685529--64685565 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
64685519 TAATTAGGCT
* *
64685529 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
64685548 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
64685566 GAAAAAGGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:64686235 original size:14 final size:15
Alignment explanation
Indices: 64686218--64686246 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
64686208 AAAATGAAAT
64686218 AAAGAAAGAA-AGCA
1 AAAGAAAGAATAGCA
64686232 AAAGAAAGAATAGCA
1 AAAGAAAGAATAGCA
64686247 GAAGCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.07, G:0.21, T:0.03
Consensus pattern (15 bp):
AAAGAAAGAATAGCA
Found at i:64687450 original size:86 final size:87
Alignment explanation
Indices: 64687345--64687514 Score: 333
Period size: 87 Copynumber: 2.0 Consensus size: 87
64687335 ATTCTCTATA
64687345 TCAAAACATACTAAAATCATATGTC-AAACATTACCCAAATTCTTAACTATGAACATACCAAAAT
1 TCAAAACATACTAAAATCATATGTCAAAACATTACCCAAATTCTTAACTATGAACATACCAAAAT
64687409 GACCATTTCACTTGGCCATGTG
66 GACCATTTCACTTGGCCATGTG
64687431 TCAAAACATACTAAAATCATATGTCAAAACATTACCCAAATTCTTAACTATGAACATACCAAAAT
1 TCAAAACATACTAAAATCATATGTCAAAACATTACCCAAATTCTTAACTATGAACATACCAAAAT
64687496 GACCATTTCACTTGGCCAT
66 GACCATTTCACTTGGCCAT
64687515 ATACACATAT
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
86 25 0.30
87 58 0.70
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.28
Consensus pattern (87 bp):
TCAAAACATACTAAAATCATATGTCAAAACATTACCCAAATTCTTAACTATGAACATACCAAAAT
GACCATTTCACTTGGCCATGTG
Found at i:64690488 original size:13 final size:14
Alignment explanation
Indices: 64690467--64690506 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
64690457 ATTTGATTGG
64690467 AAAATGAATTAAA-
1 AAAATGAATTAAAT
*
64690480 AATATGAATTAAAT
1 AAAATGAATTAAAT
64690494 AAAAGTGAATTAA
1 AAAA-TGAATTAA
64690507 TTTATGAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 3 0.13
15 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (14 bp):
AAAATGAATTAAAT
Found at i:64691303 original size:13 final size:14
Alignment explanation
Indices: 64691268--64691306 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
64691258 GAAGATATTT
64691268 ATATATTATATATAA
1 ATATATTAT-TATAA
*
64691283 ATAAATTATTAT-A
1 ATATATTATTATAA
64691296 ATATATTATTA
1 ATATATTATTA
64691307 GTAACTAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 11 0.50
14 3 0.14
15 8 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATATTATTATAA
Found at i:64691365 original size:26 final size:28
Alignment explanation
Indices: 64691313--64691369 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 28
64691303 ATTAGTAACT
*
64691313 AAAGCAAATAAAAGAAATAGAATAAAGA
1 AAAGCAAACAAAAGAAATAGAATAAAGA
64691341 AAAG-AAACAAAAG-AATAGAGA-AAAGA
1 AAAGCAAACAAAAGAAATAGA-ATAAAGA
64691367 AAA
1 AAA
64691370 CAGAAAGCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 14 0.52
27 9 0.33
28 4 0.15
ACGTcount: A:0.74, C:0.04, G:0.16, T:0.07
Consensus pattern (28 bp):
AAAGCAAACAAAAGAAATAGAATAAAGA
Found at i:64693473 original size:23 final size:22
Alignment explanation
Indices: 64693443--64693531 Score: 110
Period size: 23 Copynumber: 4.0 Consensus size: 22
64693433 GGCTTTGCCG
64693443 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCAC-TTATGTGTCGTAT
*
64693466 ATCAGGCACTTTATATGTCGTAT
1 ATCAGGCAC-TTATGTGTCGTAT
* **
64693489 TTCAGGCACTCGTGTGTCG--T
1 ATCAGGCACTTATGTGTCGTAT
64693509 ATCAGGCACTTATGTGTCGTAT
1 ATCAGGCACTTATGTGTCGTAT
64693531 A
1 A
64693532 CTGATCATGT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
20 17 0.30
22 9 0.16
23 30 0.54
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.37
Consensus pattern (22 bp):
ATCAGGCACTTATGTGTCGTAT
Found at i:64695861 original size:10 final size:10
Alignment explanation
Indices: 64695844--64695892 Score: 71
Period size: 10 Copynumber: 4.9 Consensus size: 10
64695834 TTAAATTCTA
64695844 AAAGATAAAT
1 AAAGATAAAT
*
64695854 ATAGATAAAT
1 AAAGATAAAT
* *
64695864 AAATATAATT
1 AAAGATAAAT
64695874 AAAGATAAAT
1 AAAGATAAAT
64695884 AAAGATAAA
1 AAAGATAAA
64695893 AGCTAAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:64698317 original size:14 final size:14
Alignment explanation
Indices: 64698300--64698327 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
64698290 AGTATAACAG
64698300 TGCGAATATAGCTA
1 TGCGAATATAGCTA
64698314 TGCGAATATAGCTA
1 TGCGAATATAGCTA
64698328 AACCTAAAAG
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:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (14 bp):
TGCGAATATAGCTA
Found at i:64698531 original size:23 final size:23
Alignment explanation
Indices: 64698501--64698549 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
64698491 TAAGAATGTG
64698501 AAACATGACTCATCTACTTTACT
1 AAACATGACTCATCTACTTTACT
64698524 AAACATGACTCATCTACTTTACT
1 AAACATGACTCATCTACTTTACT
64698547 AAA
1 AAA
64698550 GCAAGTGAGA
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:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (23 bp):
AAACATGACTCATCTACTTTACT
Found at i:64698691 original size:18 final size:18
Alignment explanation
Indices: 64698668--64698706 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
64698658 TATATATAAC
* *
64698668 ATATATATTTATAAAAAA
1 ATATATAGTAATAAAAAA
64698686 ATATATAGTAATAAAAAA
1 ATATATAGTAATAAAAAA
64698704 ATA
1 ATA
64698707 AGTTGAGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATATAGTAATAAAAAA
Found at i:64701131 original size:80 final size:80
Alignment explanation
Indices: 64700981--64701131 Score: 207
Period size: 81 Copynumber: 1.9 Consensus size: 80
64700971 AAAGGGACTA
* * * *
64700981 AAGTGTAATTTTACTATATATTAAATTATGATTTCTTTATTTATAAGAGAACTGAATTGAAAATT
1 AAGTGTAATTTTACTATATATTAAATTATAATTTATCTATTTATAAAAGAACTGAATTGAAAATT
*
64701046 TTTTTTAGGAGGTCG
66 ATTTTTAGGAGGTCG
* *
64701061 AAGTGTAATTTTACTATAATATTAATTTATAATTTATCTATTTATAAAA-AGATTGAATTG-AAA
1 AAGTGTAATTTTACTAT-ATATTAAATTATAATTTATCTATTTATAAAAGA-ACTGAATTGAAAA
64701124 TTATTTTT
64 TTATTTTT
64701132 GTGAGGGACA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
80 28 0.45
81 34 0.55
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (80 bp):
AAGTGTAATTTTACTATATATTAAATTATAATTTATCTATTTATAAAAGAACTGAATTGAAAATT
ATTTTTAGGAGGTCG
Found at i:64702168 original size:12 final size:12
Alignment explanation
Indices: 64702151--64702182 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
64702141 ATTTGCTCTT
64702151 ATCATCATCACC
1 ATCATCATCACC
64702163 ATCATCATCACC
1 ATCATCATCACC
*
64702175 ACCATCAT
1 ATCATCAT
64702183 GACTCTACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.34, C:0.41, G:0.00, T:0.25
Consensus pattern (12 bp):
ATCATCATCACC
Found at i:64702171 original size:15 final size:15
Alignment explanation
Indices: 64702151--64702182 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
64702141 ATTTGCTCTT
*
64702151 ATCATCATCACCATC
1 ATCATCACCACCATC
64702166 ATCATCACCACCATC
1 ATCATCACCACCATC
64702181 AT
1 AT
64702183 GACTCTACTA
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:0.34, C:0.41, G:0.00, T:0.25
Consensus pattern (15 bp):
ATCATCACCACCATC
Found at i:64702764 original size:2 final size:2
Alignment explanation
Indices: 64702757--64702790 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
64702747 TTCTCATTTG
64702757 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
64702791 GTGTATGAAC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:64710821 original size:70 final size:70
Alignment explanation
Indices: 64710708--64710850 Score: 277
Period size: 70 Copynumber: 2.0 Consensus size: 70
64710698 GAGTTATGAT
64710708 GAGTTTGATTTGAATACTGTCTTTTATACAATGTTTAAACTATCCAAATCTCTCCCCAATCCCTA
1 GAGTTTGATTTGAATACTGTCTTTTATACAATGTTTAAACTATCCAAATCTCTCCCCAATCCCTA
64710773 AAGTG
66 AAGTG
*
64710778 GAGTTTGATTTGAATACTGTCTTTTATACAATGTTTAAACTATCCAAATCTCTCCCCACTCCCTA
1 GAGTTTGATTTGAATACTGTCTTTTATACAATGTTTAAACTATCCAAATCTCTCCCCAATCCCTA
64710843 AAGTG
66 AAGTG
64710848 GAG
1 GAG
64710851 GATATTACGC
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (70 bp):
GAGTTTGATTTGAATACTGTCTTTTATACAATGTTTAAACTATCCAAATCTCTCCCCAATCCCTA
AAGTG
Found at i:64716617 original size:6 final size:6
Alignment explanation
Indices: 64716590--64716659 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
64716580 TGACAAAAGT
* * *
64716590 AAATAA AAGA-AA AATTAGA AAATAA AAATTA AACTAA AAAT-A AAATAA
1 AAATAA AA-ATAA AAATA-A AAATAA AAATAA AAATAA AAATAA AAATAA
* * *
64716638 AAATTA TAATAG AAATAA AAAT
1 AAATAA AAATAA AAATAA AAAT
64716660 GGCTAAATTA
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
5 5 0.10
6 37 0.77
7 6 0.12
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.21
Consensus pattern (6 bp):
AAATAA
Found at i:64716629 original size:12 final size:12
Alignment explanation
Indices: 64716593--64716659 Score: 64
Period size: 12 Copynumber: 5.5 Consensus size: 12
64716583 CAAAAGTAAA
*
64716593 TAAAAGAAAAAT
1 TAAAATAAAAAT
64716605 TAGAAAATAAAAAT
1 T--AAAATAAAAAT
*
64716619 TAAACTAAAAA-
1 TAAAATAAAAAT
64716630 TAAAATAAAAAT
1 TAAAATAAAAAT
* *
64716642 TATAATAGAAAT
1 TAAAATAAAAAT
*
64716654 AAAAAT
1 TAAAAT
64716660 GGCTAAATTA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
11 10 0.22
12 24 0.53
14 11 0.24
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (12 bp):
TAAAATAAAAAT
Found at i:64716634 original size:23 final size:23
Alignment explanation
Indices: 64716608--64716657 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
64716598 GAAAAATTAG
64716608 AAAATAAAAATTA-AACTAAAAAT
1 AAAATAAAAATTATAA-TAAAAAT
*
64716631 AAAATAAAAATTATAATAGAAAT
1 AAAATAAAAATTATAATAAAAAT
64716654 AAAA
1 AAAA
64716658 ATGGCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (23 bp):
AAAATAAAAATTATAATAAAAAT
Found at i:64717415 original size:21 final size:21
Alignment explanation
Indices: 64717389--64717428 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
64717379 GCGTAAAAAT
64717389 AGAAATTAAATAATAAGATAC
1 AGAAATTAAATAATAAGATAC
64717410 AGAAATTAAATAATAAGAT
1 AGAAATTAAATAATAAGAT
64717429 TCATCATAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.10, T:0.25
Consensus pattern (21 bp):
AGAAATTAAATAATAAGATAC
Found at i:64720659 original size:30 final size:30
Alignment explanation
Indices: 64720615--64720693 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
64720605 TAGGCACTTC
* * *
64720615 CACATGGGTAAACCACACGCCCGTATGAGG
1 CACACGGGCAAACCACACGCCCGTATAAGG
* *
64720645 CACACGGGCAAACCACACGTCCGTGTAAGG
1 CACACGGGCAAACCACACGCCCGTATAAGG
* *
64720675 CACACAGGCAGACCACACG
1 CACACGGGCAAACCACACG
64720694 TTCGTGTGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.32, C:0.34, G:0.25, T:0.09
Consensus pattern (30 bp):
CACACGGGCAAACCACACGCCCGTATAAGG
Found at i:64720694 original size:30 final size:30
Alignment explanation
Indices: 64720624--64720700 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 30
64720614 CCACATGGGT
* * * *
64720624 AAACCACACGCCCGTATGAGGCACACGGGC
1 AAACCACACGTCCGTGTAAGGCACACAGGC
64720654 AAACCACACGTCCGTGTAAGGCACACAGGC
1 AAACCACACGTCCGTGTAAGGCACACAGGC
* *
64720684 AGACCACACGTTCGTGT
1 AAACCACACGTCCGTGT
64720701 GTCATGACCG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.30, C:0.34, G:0.25, T:0.12
Consensus pattern (30 bp):
AAACCACACGTCCGTGTAAGGCACACAGGC
Found at i:64727177 original size:55 final size:55
Alignment explanation
Indices: 64727090--64727226 Score: 141
Period size: 55 Copynumber: 2.5 Consensus size: 55
64727080 TATGTAGGCC
* * * * *
64727090 CACGCCCGTGGTAATTTAACAGGTTCGACCACAGGTGCTAGACACGGGGGTGTCG
1 CACGCCCGTGTTAATTTGACAGTTTCGACCACAGGTGCAAGACACGGGCGTGTCG
* * *
64727145 CACGCCCGTGTTAATTTGACAGTTTC-AGCCACAGTTTCAAGGCACGGGCGTGTCG
1 CACGCCCGTGTTAATTTGACAGTTTCGA-CCACAGGTGCAAGACACGGGCGTGTCG
* * ** *
64727200 CACTCTCGTGTTGTTTTGGCAGTTTCG
1 CACGCCCGTGTTAATTTGACAGTTTCG
64727227 CTCACGACCA
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
54 1 0.01
55 66 0.99
ACGTcount: A:0.18, C:0.26, G:0.29, T:0.27
Consensus pattern (55 bp):
CACGCCCGTGTTAATTTGACAGTTTCGACCACAGGTGCAAGACACGGGCGTGTCG
Found at i:64734250 original size:12 final size:12
Alignment explanation
Indices: 64734233--64734261 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
64734223 ATTTTTGGAT
64734233 GATTTATCATAA
1 GATTTATCATAA
64734245 GATTTATCATAA
1 GATTTATCATAA
64734257 GATTT
1 GATTT
64734262 GATAAACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (12 bp):
GATTTATCATAA
Found at i:64734467 original size:15 final size:15
Alignment explanation
Indices: 64734447--64734480 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
64734437 CACACATTAG
64734447 CAAACTTTTGTTGGA
1 CAAACTTTTGTTGGA
64734462 CAAACTTTTGTTGGA
1 CAAACTTTTGTTGGA
64734477 CAAA
1 CAAA
64734481 ACACACATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (15 bp):
CAAACTTTTGTTGGA
Found at i:64735942 original size:3 final size:3
Alignment explanation
Indices: 64735934--64735959 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
64735924 TCCATCCAAG
64735934 AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
64735960 TAGTAGAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:64743004 original size:3 final size:3
Alignment explanation
Indices: 64742996--64743020 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
64742986 AAAAGAATTT
64742996 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
64743021 GGTGTGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:64754178 original size:204 final size:204
Alignment explanation
Indices: 64753691--64754268 Score: 872
Period size: 204 Copynumber: 2.8 Consensus size: 204
64753681 AAATTTGCTT
64753691 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
*
64753756 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
* *
64753821 GGATCTTCTTCAGTATAATCATCTGAAGGTAAGATCTGCAATGTATCTGCTCCCCGTCGAAGTGG
131 GGATCTTCTTCAGTATAAACATCTGAAGGT-AGATCTGCAATGTATCTGCTCCCCGTCGAAATGG
64753886 AGATGCCAGA
195 AGATGCCAGA
* * * *
64753896 CTTCGATTTGTTCTCT-AGCAATACAGAGATGCCAAATCATCGTACATTTGCTTTATCGTAAACA
1 CTTCGATTTGTTCTCTGA-CAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCA
* ** * * **
64753960 CGTGAAAGCCAAATCAGCTATGTTTTTTATTCGCTCCTTGTAAGTACAAGGATGCCAAATCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCT
* ** * *
64754025 TGGATCTTCTTCGGTATAAACATCTGAAGGT-GATCTGTTATGTATCTGCTCTCTGTCGAATATG
130 TGGATCTTCTTCAGTATAAACATCTGAAGGTAGATCTGCAATGTATCTGCTCCCCGTCGAA-ATG
64754089 GAGATGCCAGA
194 GAGATGCCAGA
* *
64754100 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * *
64754165 GTGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
* *
64754230 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGC
131 GGATCTTCTTCAGTATAAACATCTGAAGG-TAGATCTGC
64754269 TATGCTGCGG
Statistics
Matches: 330, Mismatches: 38, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
203 25 0.08
204 153 0.46
205 146 0.44
206 6 0.02
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (204 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTT
GGATCTTCTTCAGTATAAACATCTGAAGGTAGATCTGCAATGTATCTGCTCCCCGTCGAAATGGA
GATGCCAGA
Found at i:64766383 original size:14 final size:14
Alignment explanation
Indices: 64766328--64766383 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
64766318 AAATAAAAAT
64766328 ATATAATGATATA-A
1 ATATAAT-ATATATA
*
64766342 ATTATGAAAATATATA
1 A-TAT-AATATATATA
* *
64766358 ATACAATGTATATA
1 ATATAATATATATA
64766372 ATATAATATATA
1 ATATAATATATA
64766384 AAAAAATATC
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
14 19 0.58
15 10 0.30
16 4 0.12
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (14 bp):
ATATAATATATATA
Found at i:64769065 original size:29 final size:29
Alignment explanation
Indices: 64769032--64769090 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
64769022 TCTCTCTCTC
64769032 TCTCCCTCTCTCCATATATATTAACACTT
1 TCTCCCTCTCTCCATATATATTAACACTT
64769061 TCTCCCTCTCTCCATATATATTAACACTT
1 TCTCCCTCTCTCCATATATATTAACACTT
64769090 T
1 T
64769091 GCTTTTACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.34, G:0.00, T:0.42
Consensus pattern (29 bp):
TCTCCCTCTCTCCATATATATTAACACTT
Found at i:64770559 original size:27 final size:29
Alignment explanation
Indices: 64770528--64770595 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 29
64770518 TGCTTTAGTT
64770528 ATCATAA-TC-TAACTAATTTTAGATATA
1 ATCATAACTCATAACTAATTTTAGATATA
64770555 ATCATAACTCAAGTAACTAATTTTAGATATA
1 ATCATAACTC-A-TAACTAATTTTAGATATA
64770586 ATCATAACTC
1 ATCATAACTC
64770596 TTTGACTTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
27 7 0.19
28 2 0.05
31 28 0.76
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (29 bp):
ATCATAACTCATAACTAATTTTAGATATA
Found at i:64770612 original size:30 final size:31
Alignment explanation
Indices: 64770537--64770595 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
64770527 TATCATAATC
64770537 TAACTAATTTTAGATATAATCATAACTCAAG
1 TAACTAATTTTAGATATAATCATAACTCAAG
64770568 TAACTAATTTTAGATATAATCATAACTC
1 TAACTAATTTTAGATATAATCATAACTC
64770596 TTTGACTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (31 bp):
TAACTAATTTTAGATATAATCATAACTCAAG
Found at i:64779057 original size:361 final size:362
Alignment explanation
Indices: 64778362--64779087 Score: 1231
Period size: 361 Copynumber: 2.0 Consensus size: 362
64778352 CACAGAAGCA
64778362 TGAGTTTATCCATGATGAGTTTGAAAATTGTGCTTCTTACAAACTTGTCTTAACAATTTAAGAAA
1 TGAGTTTATCCATGATGAGTTTGAAAATTGTGCTTCTTACAAACTTGTCTTAACAATTTAAGAAA
* *
64778427 CCAACATCTCAGCAAGCATATTTTGGTAGAAGAAATTTAAAATCAAACCATACATTATACTAGTT
66 CCAACATCTCAGCAAGCATATTTTGGCAAAAGAAATTTAAAATCAAACCATAC--TATA-TAGTT
64778492 TCAGACAACAGCTACACTAGTAACATAAGAAAAACACCTTTGGTGTATCCCTTTAAAATTTAACA
128 TCAGACAACAGCTACACTAGTAACATAAGAAAAACACCTTTGGTGTATCCCTTTAAAATTTAACA
64778557 ATATTTTGAGAAAGAAAAAGATAACAGGCATGACAAAAAATATTAAATAGGAAGTTTGTTCGATG
193 ATATTTTGAGAAAGAAAAAGATAACAGGCATGACAAAAAATATTAAATAGGAAGTTTGTTCGATG
64778622 TTACTCTGCTCTGTAATTGCATAAATTCTCTCCAAATGCTTTGTTAAAGTTACCATATAGTTAAA
258 TTACTCTGCTCTGTAATTGCATAAATTCTCTCCAAATGCTTTGTTAAAGTTACCATATAGTTAAA
64778687 TAACCTAACTGTATACACAGACAGTCAGAGGCAAATCTAG
323 TAACCTAACTGTATACACAGACAGTCAGAGGCAAATCTAG
* *
64778727 TGAGTTTATCCATGATGTGTTTGAAAATTGTGCTTCTTACAAACTTGTTTTAACAATTTAAGAAA
1 TGAGTTTATCCATGATGAGTTTGAAAATTGTGCTTCTTACAAACTTGTCTTAACAATTTAAGAAA
* *
64778792 CCAACATCTCAGCAAGTATATTTTGGCAAAAGAAATTTAAAATCATACCATAC-AT-TAGTTTCA
66 CCAACATCTCAGCAAGCATATTTTGGCAAAAGAAATTTAAAATCAAACCATACTATATAGTTTCA
* * * *
64778855 GTCAACAGCTACACTATTAACATAATAAAAACACTTTTGGTGTATCCCTTTAAAATTTAACAATA
131 GACAACAGCTACACTAGTAACATAAGAAAAACACCTTTGGTGTATCCCTTTAAAATTTAACAATA
* * *
64778920 TTTTGAGCAGGAAAAAGATTAACAGGCATGACAAAAAATATTAAATAGGAAGTTTGTTTGATGTT
196 TTTTGAGAAAGAAAAAGA-TAACAGGCATGACAAAAAATATTAAATAGGAAGTTTGTTCGATGTT
* * *
64778985 ACTCTGCTTTGTAATTGCATATATTCTCTCCAAATGCTTTGTTAAAGTTATCATATAGTTAAATA
260 ACTCTGCTCTGTAATTGCATAAATTCTCTCCAAATGCTTTGTTAAAGTTACCATATAGTTAAATA
* **
64779050 ACCTAACTGTATTCACAGACAGTCAGAGGTGAATCTAG
325 ACCTAACTGTATACACAGACAGTCAGAGGCAAATCTAG
64779088 GGGGCAGGCA
Statistics
Matches: 341, Mismatches: 19, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
360 85 0.25
361 142 0.42
362 2 0.01
365 112 0.33
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (362 bp):
TGAGTTTATCCATGATGAGTTTGAAAATTGTGCTTCTTACAAACTTGTCTTAACAATTTAAGAAA
CCAACATCTCAGCAAGCATATTTTGGCAAAAGAAATTTAAAATCAAACCATACTATATAGTTTCA
GACAACAGCTACACTAGTAACATAAGAAAAACACCTTTGGTGTATCCCTTTAAAATTTAACAATA
TTTTGAGAAAGAAAAAGATAACAGGCATGACAAAAAATATTAAATAGGAAGTTTGTTCGATGTTA
CTCTGCTCTGTAATTGCATAAATTCTCTCCAAATGCTTTGTTAAAGTTACCATATAGTTAAATAA
CCTAACTGTATACACAGACAGTCAGAGGCAAATCTAG
Found at i:64789865 original size:23 final size:23
Alignment explanation
Indices: 64789821--64789867 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
64789811 ACTTAAGTTA
**
64789821 ATTAATTAAATTTATATTTATTT
1 ATTAATTAAATTTATAACTATTT
64789844 ATTAATTTAAATTT-TAACTATTT
1 ATTAA-TTAAATTTATAACTATTT
64789867 A
1 A
64789868 ATAGTCATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTAATTAAATTTATAACTATTT
Found at i:64793310 original size:6 final size:6
Alignment explanation
Indices: 64793299--64793325 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
64793289 ATCAAGGATG
64793299 GGGGAA GGGGAA GGGGAA GGGGAA GGG
1 GGGGAA GGGGAA GGGGAA GGGGAA GGG
64793326 AAATGGAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.70, T:0.00
Consensus pattern (6 bp):
GGGGAA
Found at i:64796478 original size:326 final size:326
Alignment explanation
Indices: 64795880--64796507 Score: 755
Period size: 326 Copynumber: 1.9 Consensus size: 326
64795870 TCTTTTTAGC
* * * ** *
64795880 TAAAAATATTTATTTTATTGTTGTTTATTTATATACATATTGCTAATGATCACTCTTCCATCTAT
1 TAAAAATATTTATTTTATTGATATTTATTTATAAACATATTGCTAACAATCACTCTTCCACCTAT
* * * * *
64795945 AAGTACCTAATCCTTCAAGAAAAATGAGATAAGCAAGAACAAATGACGAAAACTTAGCTCGAGTG
66 AAATACCTAATCCTTCAAAAAAAATGAGATAAACAAAAACAAATGACGAAAACTTAGCTCGAGTA
* *** * * **
64796010 TAACCTTGACCTTCTAAAACCATTGAGTATAGTAACTCTCCACACCATCTATGTTGTGAATTGCT
131 TAACCTCGACCTTCTAAAACCACCAAATATAGCAACTCTCCACACCATCTATGTTGTGAACCGCT
* * * * *
64796075 CCCATTTTAATGGCTATCCATACCTCATACAATGTGAATTACCCTCATTGTATTATTCGACATCT
196 CCCATTTTAACGGCTATCCACACCTCATACAATATGAACTACCCCCATTGTATTATTCGACATCT
*
64796140 TGTGATACTTAATTGATATAATAA-AAATAAGATGAATATTTATTTATTGTTATTTATCGTTATA
261 TGTGATACTTAATTGATATAATAATAAAAAAGATGAATATTTATTTATTGTTATTTATCGTTATA
64796204 A
326 A
* **
64796205 TAAAAATATTTATTTTATTGATATTTATTTATAAACATTTTGCTCGCAATCACT-TCTCCACCTA
1 TAAAAATATTTATTTTATTGATATTTATTTATAAACATATTGCTAACAATCACTCT-TCCACCTA
* * * * * *
64796269 TAAATACTTCATCC-TCTAAAAATAAATGGGCTAAACAAAAAGAAA-GTACGAAAGCTTAGCTCG
65 TAAATACCTAATCCTTC-AAAAA-AAATGAGATAAACAAAAACAAATG-ACGAAAACTTAGCTCG
* * *
64796332 AGTATAACCTCGACCTTCTAAAACCACCAAATCTAGCGACTCTTCACACCATCTATAG-TGTGAA
127 AGTATAACCTCGACCTTCTAAAACCACCAAATATAGCAACTCTCCACACCATCTAT-GTTGTGAA
** * * * **
64796396 CCGCTCCCATTTTGGCGGCTCTCTACACCTCGTATGATATGAACTACCCCCATTGTATTATTCGA
191 CCGCTCCCATTTTAACGGCTATCCACACCTCATACAATATGAACTACCCCCATTGTATTATTCGA
*
64796461 CATCTTGTG-TAACTTAATTGTTATAATAATAAAAAAGATGAATATTT
256 CATCTTGTGAT-ACTTAATTGATATAATAATAAAAAAGATGAATATTT
64796508 GATACATTGT
Statistics
Matches: 251, Mismatches: 45, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
324 3 0.01
325 70 0.28
326 161 0.64
327 17 0.07
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (326 bp):
TAAAAATATTTATTTTATTGATATTTATTTATAAACATATTGCTAACAATCACTCTTCCACCTAT
AAATACCTAATCCTTCAAAAAAAATGAGATAAACAAAAACAAATGACGAAAACTTAGCTCGAGTA
TAACCTCGACCTTCTAAAACCACCAAATATAGCAACTCTCCACACCATCTATGTTGTGAACCGCT
CCCATTTTAACGGCTATCCACACCTCATACAATATGAACTACCCCCATTGTATTATTCGACATCT
TGTGATACTTAATTGATATAATAATAAAAAAGATGAATATTTATTTATTGTTATTTATCGTTATA
A
Found at i:64802461 original size:92 final size:92
Alignment explanation
Indices: 64802360--64802637 Score: 416
Period size: 92 Copynumber: 3.0 Consensus size: 92
64802350 ATCAACCCAA
* *
64802360 AACAAGTTTCAAAAAATCAAAATAACTTAAAATAGTGCAATGCTAAAAATAAGTGCGACTTCTCG
1 AACAAGTTTCAAAAAATCAAAACAACTTAAAATAGTGCAATGCTAAAAATAAGTGCAACTTCTCG
*
64802425 CCAAGATTTATTAAGTAGTGAAATCGC
66 ACAAGATTTATTAAGTAGTGAAATCGC
* *
64802452 AACAAGTTTCAAGAAATCAAAACAACTTAAAATAGTGCAATGCTAAAAATAAGTGCAACTTCTTG
1 AACAAGTTTCAAAAAATCAAAACAACTTAAAATAGTGCAATGCTAAAAATAAGTGCAACTTCTCG
64802517 ACAAGATTTATTAAGTAGTGAAATCGC
66 ACAAGATTTATTAAGTAGTGAAATCGC
* * * ** *
64802544 AACAAGTTTCAAAAAACCAAAACAACTT-AGATAATGCAATGCTAAAAATAAAAGCCACTT-TCC
1 AACAAGTTTCAAAAAATCAAAACAACTTAAAATAGTGCAATGCTAAAAATAAGTGCAACTTCT-C
* *
64802607 GACAAAATTTATTAAGTAGTGAAATTGC
65 GACAAGATTTATTAAGTAGTGAAATCGC
64802635 AAC
1 AAC
64802638 GTGAATTATG
Statistics
Matches: 170, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
90 1 0.01
91 56 0.33
92 113 0.66
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (92 bp):
AACAAGTTTCAAAAAATCAAAACAACTTAAAATAGTGCAATGCTAAAAATAAGTGCAACTTCTCG
ACAAGATTTATTAAGTAGTGAAATCGC
Found at i:64804986 original size:14 final size:13
Alignment explanation
Indices: 64804925--64804975 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
64804915 TTTCGCAATA
*
64804925 TTTTAAAAAAGTG
1 TTTTTAAAAAGTG
* *
64804938 -TTGTAGAAAACTG
1 TTTTTA-AAAAGTG
64804951 TTTTTAAAAAGTG
1 TTTTTAAAAAGTG
64804964 TTTTTAAAAAGT
1 TTTTTAAAAAGT
64804976 TTAGTTTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 3 0.10
13 24 0.77
14 4 0.13
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (13 bp):
TTTTTAAAAAGTG
Found at i:64805281 original size:10 final size:10
Alignment explanation
Indices: 64805266--64805312 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
64805256 AATAAAACTA
64805266 TTAATTATTT
1 TTAATTATTT
*
64805276 TTAATTAGTAT
1 TTAATTA-TTT
64805287 TTAATT-TTT
1 TTAATTATTT
*
64805296 TTATTTATTT
1 TTAATTATTT
64805306 TTAATTA
1 TTAATTA
64805313 ATAATTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 7 0.23
10 16 0.52
11 8 0.26
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (10 bp):
TTAATTATTT
Found at i:64823040 original size:6 final size:6
Alignment explanation
Indices: 64823031--64823062 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
64823021 AAATTTAACC
64823031 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
64823063 TCCAAAAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:64825874 original size:11 final size:11
Alignment explanation
Indices: 64825858--64825882 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
64825848 CTAGTTTTAT
64825858 GCTCGAGCTTG
1 GCTCGAGCTTG
64825869 GCTCGAGCTTG
1 GCTCGAGCTTG
64825880 GCT
1 GCT
64825883 TGAACTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.36, T:0.28
Consensus pattern (11 bp):
GCTCGAGCTTG
Found at i:64836622 original size:20 final size:19
Alignment explanation
Indices: 64836599--64836638 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
64836589 AAAAATTAAA
*
64836599 TTAAAATTTTAAATATGATT
1 TTAAAATGTTAAATAT-ATT
*
64836619 TTAAACTGTTAAATATATT
1 TTAAAATGTTAAATATATT
64836638 T
1 T
64836639 AACAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (19 bp):
TTAAAATGTTAAATATATT
Found at i:64836871 original size:76 final size:76
Alignment explanation
Indices: 64836748--64836907 Score: 250
Period size: 76 Copynumber: 2.1 Consensus size: 76
64836738 ATATTTTTAA
**
64836748 AATTATTATTAGAAGAATAGTAATGATTTGTTTCTTAATTAACAATATTTTAAAAAAAAAAATTT
1 AATT-TTATTAGAAGAATAGTAATGATTTGTTTAATAATTAACAATATTTT-AAAAAAAAAATTT
64836813 T-AATAGTATTTT
64 TGAATAGTATTTT
** *
64836825 AATTTTATTAGAAGAATAGTAATGATTTGTTTAATAATTAACAATATTTTAAAAATTATATTTTG
1 AATTTTATTAGAAGAATAGTAATGATTTGTTTAATAATTAACAATATTTTAAAAAAAAAATTTTG
64836890 AATAGTATTTT
66 AATAGTATTTT
64836901 AATTTTA
1 AATTTTA
64836908 AAAACTACTA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
75 11 0.14
76 62 0.81
77 4 0.05
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (76 bp):
AATTTTATTAGAAGAATAGTAATGATTTGTTTAATAATTAACAATATTTTAAAAAAAAAATTTTG
AATAGTATTTT
Found at i:64847911 original size:16 final size:15
Alignment explanation
Indices: 64847871--64847911 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
64847861 CAAAAACTTC
64847871 TATTTAGAATAATAT
1 TATTTAGAATAATAT
64847886 TATTTAAGAATAATTAT
1 TATTT-AGAATAA-TAT
*
64847903 TGTTTAGAA
1 TATTTAGAA
64847912 CAAAAACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 11 0.48
17 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (15 bp):
TATTTAGAATAATAT
Found at i:64850950 original size:41 final size:40
Alignment explanation
Indices: 64850901--64851048 Score: 127
Period size: 41 Copynumber: 3.4 Consensus size: 40
64850891 CAAAAAGTTG
64850901 AGCAATAGTGGCGCTTTT-CTACCAAACGCCGCTAAAAGCTA
1 AGCAATAGTGGCG-TTTTACT-CCAAACGCCGCTAAAAGCTA
*
64850942 AGCAATAGTGGCGTTTTAGGTCCAAACGCCGCTAAAAGTTGAGCAATTA
1 AGCAATAGTGGCGTTTTA-CTCCAAACGCCGCT-AAA----AGC---TA
* * * *
64850991 AGCAATAGTGGCATTTTAGGTCCAGACGCCGCTAAAAGCTG
1 AGCAATAGTGGCGTTTTA-CTCCAAACGCCGCTAAAAGCTA
*
64851032 ATCAATAGTGGCGTTTT
1 AGCAATAGTGGCGTTTT
64851049 TGGTCAAAAC
Statistics
Matches: 91, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
40 4 0.04
41 41 0.45
42 4 0.04
44 3 0.03
46 3 0.03
48 3 0.03
49 33 0.36
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (40 bp):
AGCAATAGTGGCGTTTTACTCCAAACGCCGCTAAAAGCTA
Found at i:64851012 original size:49 final size:49
Alignment explanation
Indices: 64850940--64851037 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
64850930 CGCTAAAAGC
* *
64850940 TAAGCAATAGTGGCGTTTTAGGTCCAAACGCCGCTAAAAGTTGAGCAAT
1 TAAGCAATAGTGGCATTTTAGGTCCAAACGCCGCTAAAAGCTGAGCAAT
* *
64850989 TAAGCAATAGTGGCATTTTAGGTCCAGACGCCGCTAAAAGCTGATCAAT
1 TAAGCAATAGTGGCATTTTAGGTCCAAACGCCGCTAAAAGCTGAGCAAT
64851038 AGTGGCGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.24
Consensus pattern (49 bp):
TAAGCAATAGTGGCATTTTAGGTCCAAACGCCGCTAAAAGCTGAGCAAT
Found at i:64851081 original size:41 final size:41
Alignment explanation
Indices: 64850991--64851090 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 41
64850981 TGAGCAATTA
* * *
64850991 AGCAATAGTGGCATTTTAGGTCCAGACGCCGCTAAAAGCTG
1 AGCAATAGTGGCATTTTTGGTCAAAACGCCGCTAAAAGCTG
* * *
64851032 ATCAATAGTGGCGTTTTTGGTCAAAACGCCGC-AAAAGGTTG
1 AGCAATAGTGGCATTTTTGGTCAAAACGCCGCTAAAA-GCTG
* *
64851073 AGCTATAGTGGCCTTTTT
1 AGCAATAGTGGCATTTTT
64851091 TTTTTATCTA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 4 0.08
41 45 0.92
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (41 bp):
AGCAATAGTGGCATTTTTGGTCAAAACGCCGCTAAAAGCTG
Found at i:64851655 original size:7 final size:7
Alignment explanation
Indices: 64851645--64851731 Score: 61
Period size: 7 Copynumber: 12.6 Consensus size: 7
64851635 CACTAAACTT
64851645 TAAACCA
1 TAAACCA
*
64851652 TAAATTC-
1 TAAA-CCA
*
64851659 TAAACCC
1 TAAACCA
64851666 TAAACCA
1 TAAACCA
*
64851673 TAAACTA
1 TAAACCA
* *
64851680 TATACAA
1 TAAACCA
64851687 TAAACC-
1 TAAACCA
64851693 TAAACCA
1 TAAACCA
*
64851700 TAAACCC
1 TAAACCA
* *
64851707 TAATCCC
1 TAAACCA
*
64851714 TAAACCT
1 TAAACCA
*
64851721 TAAACCT
1 TAAACCA
64851728 TAAA
1 TAAA
64851732 TGATGCAAGA
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
6 7 0.11
7 57 0.88
8 1 0.02
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAACCA
Found at i:64851655 original size:21 final size:21
Alignment explanation
Indices: 64851631--64851677 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
64851621 TGTTTATCCC
**
64851631 TAAACACTAAACTTTAAACCA
1 TAAACACTAAACCCTAAACCA
**
64851652 TAAATTCTAAACCCTAAACCA
1 TAAACACTAAACCCTAAACCA
64851673 TAAAC
1 TAAAC
64851678 TATATACAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACACTAAACCCTAAACCA
Found at i:64851804 original size:41 final size:41
Alignment explanation
Indices: 64851736--64851836 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 41
64851726 CTTAAATGAT
* * * *
64851736 GCAAGAGGTCAAGCAGTAGCGGTGTTTGTGATAAAAAC-ACC
1 GCAAAAGGTCAAGCAATAACGGCGTTTGTGATAAAAACGA-C
64851777 GCAAAAGGTCAAGCAATAACGGCGTTTGTGATAAAAACGAC
1 GCAAAAGGTCAAGCAATAACGGCGTTTGTGATAAAAACGAC
** *
64851818 GGTAAAGGTCAAGCCATAA
1 GCAAAAGGTCAAGCAATAA
64851837 AAAATAATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
41 51 0.98
42 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.18
Consensus pattern (41 bp):
GCAAAAGGTCAAGCAATAACGGCGTTTGTGATAAAAACGAC
Found at i:64851933 original size:22 final size:22
Alignment explanation
Indices: 64851866--64851934 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
64851856 AGGGTTTAGA
* *
64851866 TTTTAAGATTTAAT-GTTTAAAG
1 TTTTAAGGTTT-ATGGTTTAATG
*
64851888 -TTTAAGGTCTATGGTTT-ATGG
1 TTTTAAGGTTTATGGTTTAAT-G
64851909 TTTTAAGGTTTATGGTTTAATG
1 TTTTAAGGTTTATGGTTTAATG
64851931 TTTT
1 TTTT
64851935 GTAACAGCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 3 0.08
21 13 0.33
22 21 0.54
23 2 0.05
ACGTcount: A:0.25, C:0.01, G:0.20, T:0.54
Consensus pattern (22 bp):
TTTTAAGGTTTATGGTTTAATG
Found at i:64854820 original size:29 final size:29
Alignment explanation
Indices: 64854784--64854863 Score: 101
Period size: 28 Copynumber: 2.8 Consensus size: 29
64854774 CACTTTGTGC
*
64854784 TATTCTGGTGTGTTTTGGATGGATTGTAT
1 TATTCTGGTGTGTTTTGGATGGATTATAT
*
64854813 TATTCTGGTGTGTTTGGGA-GGATTATAT
1 TATTCTGGTGTGTTTTGGATGGATTATAT
* *
64854841 GATAT-TGGTGTGTTTTGGTTGGA
1 TAT-TCTGGTGTGTTTTGGATGGA
64854864 CATTTTGGTG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
28 22 0.50
29 22 0.50
ACGTcount: A:0.15, C:0.03, G:0.34, T:0.49
Consensus pattern (29 bp):
TATTCTGGTGTGTTTTGGATGGATTATAT
Found at i:64855086 original size:22 final size:23
Alignment explanation
Indices: 64855049--64855093 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
64855039 GCTTTACTGA
64855049 TCAGACACTTTATGTGTCGTATT
1 TCAGACACTTTATGTGTCGTATT
*
64855072 TCAGGCAC-TTATGTGTCGTATT
1 TCAGACACTTTATGTGTCGTATT
64855094 CTTATCAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (23 bp):
TCAGACACTTTATGTGTCGTATT
Found at i:64859673 original size:15 final size:14
Alignment explanation
Indices: 64859638--64859680 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
64859628 AACCTTAGTA
64859638 TTTAAGGTTTAGGG
1 TTTAAGGTTTAGGG
* *
64859652 GTTAAGGTATTATGG
1 TTTAAGGT-TTAGGG
*
64859667 TTTAAGGGTTAGGG
1 TTTAAGGTTTAGGG
64859681 ATTTTAATAA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (14 bp):
TTTAAGGTTTAGGG
Found at i:64859947 original size:22 final size:23
Alignment explanation
Indices: 64859905--64859947 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
64859895 GGTTTAGAGT
64859905 TTAGGGATTTAACGGTCAGGGTA
1 TTAGGGATTTAACGGTCAGGGTA
* *
64859928 TTAGGG-TTTAAGGGTTAGGG
1 TTAGGGATTTAACGGTCAGGG
64859948 ATTTTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.23, C:0.05, G:0.40, T:0.33
Consensus pattern (23 bp):
TTAGGGATTTAACGGTCAGGGTA
Found at i:64860896 original size:19 final size:18
Alignment explanation
Indices: 64860872--64860919 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
64860862 CCCAACAAAA
*
64860872 TTTCCCCAATTTCCTAAAC
1 TTTCCCCAA-TCCCTAAAC
* *
64860891 TTTCCCTAATCCCTAAAT
1 TTTCCCCAATCCCTAAAC
*
64860909 TTTCCCAAATC
1 TTTCCCCAATC
64860920 AAAATCCCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.27, C:0.35, G:0.00, T:0.38
Consensus pattern (18 bp):
TTTCCCCAATCCCTAAAC
Found at i:64860907 original size:18 final size:18
Alignment explanation
Indices: 64860884--64860919 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
64860874 TCCCCAATTT
*
64860884 CCTAAACTTTCCCTAATC
1 CCTAAACTTTCCCAAATC
*
64860902 CCTAAATTTTCCCAAATC
1 CCTAAACTTTCCCAAATC
64860920 AAAATCCCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.33
Consensus pattern (18 bp):
CCTAAACTTTCCCAAATC
Found at i:64864025 original size:13 final size:13
Alignment explanation
Indices: 64864009--64864033 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64863999 TAATTAAAGG
64864009 GTTAAAATTTAAA
1 GTTAAAATTTAAA
64864022 GTTAAAATTTAA
1 GTTAAAATTTAA
64864034 CTTACACAAC
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:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
GTTAAAATTTAAA
Found at i:64864106 original size:34 final size:35
Alignment explanation
Indices: 64864047--64864127 Score: 119
Period size: 34 Copynumber: 2.3 Consensus size: 35
64864037 ACACAACTTA
* *
64864047 CATAATTTACATAATGTACATAAATATATATCATAT
1 CATAACTTACATAA-GTACATAAATAAATATCATAT
*
64864083 CATAACTTACATAA-TACATAAATAAATATCATCT
1 CATAACTTACATAAGTACATAAATAAATATCATAT
64864117 CATAACTTACA
1 CATAACTTACA
64864128 CAACTTACAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
34 29 0.69
36 13 0.31
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (35 bp):
CATAACTTACATAAGTACATAAATAAATATCATAT
Found at i:64864133 original size:43 final size:43
Alignment explanation
Indices: 64864086--64864237 Score: 173
Period size: 43 Copynumber: 3.5 Consensus size: 43
64864076 ATCATATCAT
*
64864086 AACTTACATAATACATAAATAAATATCATCTCATAACTTACAC
1 AACTTACATAATACATAAATAAATATCATATCATAACTTACAC
* * * * *
64864129 AACTTACATAATTTACATAATGTACATA-AATAT-ATATCATATCAC
1 AACTTACATAA--TACATAA-ATAAATATCATATCATAACTTA-CAC
*
64864174 AACTTACATAATACATAAATAAATATCATATCATAACTTACAT
1 AACTTACATAATACATAAATAAATATCATATCATAACTTACAC
* *
64864217 AATTTACGTAATACATAAATA
1 AACTTACATAATACATAAATA
64864238 TATACTTATA
Statistics
Matches: 89, Mismatches: 14, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
42 5 0.06
43 43 0.48
44 12 0.13
45 24 0.27
46 5 0.06
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.33
Consensus pattern (43 bp):
AACTTACATAATACATAAATAAATATCATATCATAACTTACAC
Done.