Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 180 of 295
Found at i:56890659 original size:16 final size:16
Alignment explanation
Indices: 56890638--56890705 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
56890628 GATTTGCTAT
*
56890638 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
56890654 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
56890670 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
56890686 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
56890702 TACA
1 TACA
56890706 GTGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:56893098 original size:19 final size:18
Alignment explanation
Indices: 56893070--56893121 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
56893060 TCACCTTTGA
*
56893070 TTAATGTTTTTATAATTC
1 TTAATTTTTTTATAATTC
*
56893088 TCTAATTTTTTTATATTTC
1 T-TAATTTTTTTATAATTC
56893107 TTGAATTTTATTTAT
1 TT-AATTTT-TTTAT
56893122 TTATTTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 2 0.07
19 22 0.76
20 5 0.17
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (18 bp):
TTAATTTTTTTATAATTC
Found at i:56893744 original size:20 final size:20
Alignment explanation
Indices: 56893699--56893739 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
56893689 ACTCCTTTAT
56893699 TTATATAAATAAAATAATAA
1 TTATATAAATAAAATAATAA
56893719 TTATAT-AATAAAA-AAT-A
1 TTATATAAATAAAATAATAA
56893736 TTAT
1 TTAT
56893740 TATATTTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 3 0.14
19 7 0.33
20 6 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TTATATAAATAAAATAATAA
Found at i:56893764 original size:21 final size:18
Alignment explanation
Indices: 56893740--56893778 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 18
56893730 AAAATATTAT
56893740 TATATTTATCATTATTTTAAA
1 TATATTT-T-ATT-TTTTAAA
56893761 TATATTTTATTTTTTAAA
1 TATATTTTATTTTTTAAA
56893779 AAACATCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 3 0.17
20 1 0.06
21 7 0.39
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATTTTATTTTTTAAA
Found at i:56894034 original size:15 final size:15
Alignment explanation
Indices: 56894016--56894090 Score: 71
Period size: 15 Copynumber: 4.9 Consensus size: 15
56894006 TCAAATGCAC
56894016 ATATAAAAATATACA
1 ATATAAAAATATACA
*
56894031 ATATTAAAATATACA
1 ATATAAAAATATACA
* *
56894046 ATATACAATATATTAAA
1 ATATA-AAAATA-TACA
* *
56894063 AAATAAATAT-TACA
1 ATATAAAAATATACA
56894077 CATATAAAAATATA
1 -ATATAAAAATATA
56894091 ATAATATTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
14 3 0.06
15 26 0.54
16 12 0.25
17 7 0.15
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.31
Consensus pattern (15 bp):
ATATAAAAATATACA
Found at i:56894048 original size:7 final size:7
Alignment explanation
Indices: 56894023--56894057 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
56894013 CACATATAAA
56894023 AATATAC
1 AATATAC
*
56894030 AATATTAA
1 AATA-TAC
56894038 AATATAC
1 AATATAC
56894045 AATATAC
1 AATATAC
56894052 AATATA
1 AATATA
56894058 TTAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (7 bp):
AATATAC
Found at i:56894050 original size:22 final size:22
Alignment explanation
Indices: 56894022--56894091 Score: 79
Period size: 23 Copynumber: 3.1 Consensus size: 22
56894012 GCACATATAA
56894022 AAATATACA-ATATTAAAATAT
1 AAATATACACATATTAAAATAT
* *
56894043 ACAATATACAATATATTAAAAAAT
1 A-AATATAC-ACATATTAAAATAT
*
56894067 AAATATTACACATATAAAAATAT
1 AAATA-TACACATATTAAAATAT
56894090 AA
1 AA
56894092 TAATATTTGC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 1 0.02
22 7 0.17
23 18 0.44
24 15 0.37
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (22 bp):
AAATATACACATATTAAAATAT
Found at i:56895996 original size:21 final size:19
Alignment explanation
Indices: 56895959--56895998 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
56895949 TTTTATTTTT
56895959 AATTCATTTTTAATTAATA
1 AATTCATTTTTAATTAATA
*
56895978 AATTCTTTATTTATATTAATA
1 AATTCATT-TTTA-ATTAATA
56895999 GAATAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 4 0.22
21 7 0.39
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (19 bp):
AATTCATTTTTAATTAATA
Found at i:56896023 original size:19 final size:19
Alignment explanation
Indices: 56896001--56896038 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
56895991 TATTAATAGA
56896001 ATAAT-AAAAATATAATTTT
1 ATAATGAAAAATAT-ATTTT
56896020 ATAATGAAAAATATATTTT
1 ATAATGAAAAATATATTTT
56896039 CGATATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
ATAATGAAAAATATATTTT
Found at i:56896150 original size:17 final size:17
Alignment explanation
Indices: 56896100--56896153 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 17
56896090 AGTTGTTTTG
*
56896100 ATATATTTTTT-CTTAT
1 ATATATTTTTTACCTAT
*
56896116 ATATAATTTTTACGCCTAT
1 ATATATTTTTTA--CCTAT
*
56896135 ATTTATTTTTTACCTAT
1 ATATATTTTTTACCTAT
56896152 AT
1 AT
56896154 CGTGTGTACA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
16 10 0.32
17 7 0.23
19 14 0.45
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.59
Consensus pattern (17 bp):
ATATATTTTTTACCTAT
Found at i:56898216 original size:15 final size:15
Alignment explanation
Indices: 56898196--56898225 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
56898186 GATATCATTA
56898196 GGGGTCTACATGTTC
1 GGGGTCTACATGTTC
56898211 GGGGTCTACATGTTC
1 GGGGTCTACATGTTC
56898226 AGGTTCAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.20, G:0.33, T:0.33
Consensus pattern (15 bp):
GGGGTCTACATGTTC
Found at i:56898603 original size:21 final size:19
Alignment explanation
Indices: 56898559--56898613 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
56898549 CAAAATAGTG
56898559 AAAAAAA-TAATAAAATAGC
1 AAAAAAAGTAA-AAAATAGC
56898578 AAAAAAAGTAAAAAATAGC
1 AAAAAAAGTAAAAAATAGC
56898597 AATAAAATAGTAAAAAA
1 AA-AAAA-AGTAAAAAA
56898614 AATAATAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 17 0.52
20 7 0.21
21 9 0.27
ACGTcount: A:0.75, C:0.04, G:0.07, T:0.15
Consensus pattern (19 bp):
AAAAAAAGTAAAAAATAGC
Found at i:56902236 original size:21 final size:19
Alignment explanation
Indices: 56902207--56902248 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
56902197 TTAATTTCAA
*
56902207 TTAAGTTAAATTTAATTTTT
1 TTAAGTTAAA-ATAATTTTT
56902227 TTAAGATTAAAATAATTTTT
1 TTAAG-TTAAAATAATTTTT
56902247 TT
1 TT
56902249 GTCTTTCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TTAAGTTAAAATAATTTTT
Found at i:56912169 original size:13 final size:13
Alignment explanation
Indices: 56912153--56912197 Score: 81
Period size: 13 Copynumber: 3.4 Consensus size: 13
56912143 CCATCTCAAG
56912153 CATTTACAGAACA
1 CATTTACAGAACA
56912166 CATTTTACAGAACA
1 CA-TTTACAGAACA
56912180 CATTTACAGAACA
1 CATTTACAGAACA
56912193 CATTT
1 CATTT
56912198 TTCATAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 18 0.58
14 13 0.42
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (13 bp):
CATTTACAGAACA
Found at i:56912174 original size:14 final size:14
Alignment explanation
Indices: 56912155--56912198 Score: 81
Period size: 14 Copynumber: 3.2 Consensus size: 14
56912145 ATCTCAAGCA
56912155 TTTACAGAACACAT
1 TTTACAGAACACAT
56912169 TTTACAGAACACA-
1 TTTACAGAACACAT
56912182 TTTACAGAACACAT
1 TTTACAGAACACAT
56912196 TTT
1 TTT
56912199 TCATAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.45
14 16 0.55
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (14 bp):
TTTACAGAACACAT
Found at i:56913513 original size:55 final size:56
Alignment explanation
Indices: 56913448--56913564 Score: 164
Period size: 56 Copynumber: 2.1 Consensus size: 56
56913438 TAAGTGATTT
* *
56913448 TGATGGTCATTTTTGTT-AATTTTGAGTTTTTGAAACCCTTATAGCTTAATCTAGC
1 TGATGATCATTTTTGTTGAATTTTGAGCTTTTGAAACCCTTATAGCTTAATCTAGC
* * * *
56913503 TGATGATCATTTTTGTTGATTTTTGTGCTTTTGGAACCTTTATAGCTTAATCTAGC
1 TGATGATCATTTTTGTTGAATTTTGAGCTTTTGAAACCCTTATAGCTTAATCTAGC
*
56913559 TAATGA
1 TGATGA
56913565 GGGGACTATT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
55 16 0.30
56 38 0.70
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.48
Consensus pattern (56 bp):
TGATGATCATTTTTGTTGAATTTTGAGCTTTTGAAACCCTTATAGCTTAATCTAGC
Found at i:56915762 original size:20 final size:20
Alignment explanation
Indices: 56915725--56915763 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
56915715 CTCTCATATT
* *
56915725 AATCTCGTTGAATTTCCCAA
1 AATCTCGATGAATATCCCAA
*
56915745 AATCTCGATGGATATCCCA
1 AATCTCGATGAATATCCCA
56915764 TTCACCGTCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.31
Consensus pattern (20 bp):
AATCTCGATGAATATCCCAA
Found at i:56917412 original size:48 final size:47
Alignment explanation
Indices: 56917350--56917770 Score: 392
Period size: 48 Copynumber: 8.8 Consensus size: 47
56917340 GGATGTTACA
* *
56917350 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTAATACATGAGC
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTAATACA-GAGC
* * * ** *
56917398 CAGTGTAAGACCATGTTTGAGACATGGCATCAGCATTGTTATGAGAGC
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTAATA-CAGAGC
* * * * **
56917446 TAGTGTAAGACCATGTTTTGGGAGATGTCATCGGCCTCAATATTTGAGC
1 TAGTGTAAGACCATG-TTTGGGACATGGCATCGGCATTAATA-CAGAGC
* ** *
56917495 TAGTGTAAGACCATGTTTGGAACATGGCATCGATATTATTACGAGAGC
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTAATAC-AGAGC
* * * * **
56917543 TAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCAATATGTGAGC
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTAATA-CAGAGC
* * * * ** *
56917591 CAATGTAAGACCATGTTTGGAACATGGCATCGGTATTGTTACGAAAGC
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTAATAC-AGAGC
* * * *
56917639 TAGTGTAAGACTATGTTTGGGACATGGCATCGGCCTAAATATATGAGC
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTAATACA-GAGC
* ** *
56917687 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTTTATGAGAGC
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTAATA-CAGAGC
* *
56917735 TAGTGTAAGACCATGTCTGAGACATGGCATCGGCAT
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT
56917771 CTTACCCTTT
Statistics
Matches: 293, Mismatches: 73, Indels: 14
0.77 0.19 0.04
Matches are distributed among these distances:
47 1 0.00
48 252 0.86
49 40 0.14
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (47 bp):
TAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTAATACAGAGC
Found at i:56917610 original size:96 final size:96
Alignment explanation
Indices: 56917350--56917768 Score: 581
Period size: 96 Copynumber: 4.4 Consensus size: 96
56917340 GGATGTTACA
* *
56917350 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTAATACATGAGCCAGTGTAAGACCATGTT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATATGAGCCAGTGTAAGACCATGTT
*
56917415 T-GAGACATGGCATC-AGCATTGTTATGAGAGC
66 TGGA-ACATGGCATCGA-CATTGTTACGAGAGC
* * * * *
56917446 TAGTGTAAGACCATGTTTTGGGAGATGTCATCGGCCTCAATATTTGAGCTAGTGTAAGACCATGT
1 TAGTGTAAGACCATG-TCTGGGACATGGCATCGGCCTCAATATATGAGCCAGTGTAAGACCATGT
* *
56917511 TTGGAACATGGCATCGATATTATTACGAGAGC
65 TTGGAACATGGCATCGACATTGTTACGAGAGC
* * *
56917543 TAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCAATATGTGAGCCAATGTAAGACCATGTT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATATGAGCCAGTGTAAGACCATGTT
** *
56917608 TGGAACATGGCATCGGTATTGTTACGAAAGC
66 TGGAACATGGCATCGACATTGTTACGAGAGC
* * *
56917639 TAGTGTAAGACTATGTTTGGGACATGGCATCGGCCTAAATATATGAGCCAGTGTAAGACCATGTT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATATGAGCCAGTGTAAGACCATGTT
* * * *
56917704 TGGGACATGGCATCGGCATTTTTATGAGAGC
66 TGGAACATGGCATCGACATTGTTACGAGAGC
*
56917735 TAGTGTAAGACCATGTCTGAGACATGGCATCGGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGC
56917769 ATCTTACCCT
Statistics
Matches: 286, Mismatches: 34, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
96 202 0.71
97 81 0.28
98 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (96 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATATGAGCCAGTGTAAGACCATGTT
TGGAACATGGCATCGACATTGTTACGAGAGC
Found at i:56917692 original size:144 final size:143
Alignment explanation
Indices: 56917350--56917768 Score: 486
Period size: 144 Copynumber: 2.9 Consensus size: 143
56917340 GGATGTTACA
*
56917350 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTAATACATGAGCCAGTGTAAGACCATGTT
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTTAATACATGAGCCAGTGTAAGACCATGTT
* * * * * *
56917415 TGAGACATGGCATCAGCATTGTTATGAGAGCTAGTGTAAGACCATGTTTTGGGAGATGTCATCGG
66 TGGGACATGGCATCGGCATTATTATGAGAGCTAGTGTAAGACCATG-TTTGGAACATGGCATCGG
*
56917480 CCTCAATATTTGAGC
130 -CTCAATATTCGAGC
* *** * *
56917495 TAGTGTAAGACCATGTTTGGAACATGGCATCGATATTATTACGA-GAGCTAGTGTAAGACCATGT
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTTAATAC-ATGAGCCAGTGTAAGACCATGT
* * * * * * * *
56917559 CTGGGACATGGCATTGGCCTCAATATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATCGG
65 TTGGGACATGGCATCGGCATTATTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGG
* *
56917624 -T-ATTGTTACGAAAGC
130 CTCAATATT-CG--AGC
* * *
56917639 TAGTGTAAGACTATGTTTGGGACATGGCATCGGCCTAAATATATGAGCCAGTGTAAGACCATGTT
1 TAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTTAATACATGAGCCAGTGTAAGACCATGTT
* *
56917704 TGGGACATGGCATCGGCATTTTTATGAGAGCTAGTGTAAGACCATGTCT-GAGACATGGCATCGG
66 TGGGACATGGCATCGGCATTATTATGAGAGCTAGTGTAAGACCATGTTTGGA-ACATGGCATCGG
56917768 C
130 C
56917769 ATCTTACCCT
Statistics
Matches: 224, Mismatches: 43, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
141 4 0.02
142 2 0.01
143 3 0.01
144 123 0.55
145 91 0.41
146 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (143 bp):
TAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTTAATACATGAGCCAGTGTAAGACCATGTT
TGGGACATGGCATCGGCATTATTATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGC
TCAATATTCGAGC
Found at i:56919606 original size:18 final size:18
Alignment explanation
Indices: 56919565--56919664 Score: 94
Period size: 18 Copynumber: 5.6 Consensus size: 18
56919555 ATGGTTTGAC
* * *
56919565 TCTTCTTCCACAACTGAA
1 TCTTCTTCCTCACCTGCA
*
56919583 TTTTCTTCCTCACCTGCA
1 TCTTCTTCCTCACCTGCA
*
56919601 TCTTCTTCCTCACCTACA
1 TCTTCTTCCTCACCTGCA
* *
56919619 TCTTCTTCTTCA-GTCGCA
1 TCTTCTTCCTCACCT-GCA
**
56919637 TCTTCTTATTCACCTGCA
1 TCTTCTTCCTCACCTGCA
*
56919655 ACTTCTTCCT
1 TCTTCTTCCT
56919665 TAGTCGCATA
Statistics
Matches: 66, Mismatches: 14, Indels: 4
0.79 0.17 0.05
Matches are distributed among these distances:
17 1 0.02
18 64 0.97
19 1 0.02
ACGTcount: A:0.16, C:0.37, G:0.05, T:0.42
Consensus pattern (18 bp):
TCTTCTTCCTCACCTGCA
Found at i:56919625 original size:36 final size:36
Alignment explanation
Indices: 56919585--56919684 Score: 94
Period size: 36 Copynumber: 2.8 Consensus size: 36
56919575 CAACTGAATT
* *
56919585 TTCTTCCTCAC-CTGCATCTTCTTCCTCACCTACATC
1 TTCTTCCTCACTC-GCATCTTCTTACTCACCTACAAC
* * * *
56919621 TTCTTCTTCAGTCGCATCTTCTTATTCACCTGCAAC
1 TTCTTCCTCACTCGCATCTTCTTACTCACCTACAAC
* * * *
56919657 TTCTTCCTTAGTCGCATATTCTTCCTCA
1 TTCTTCCTCACTCGCATCTTCTTACTCA
56919685 TCTGTGCCTT
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
36 51 0.98
37 1 0.02
ACGTcount: A:0.15, C:0.37, G:0.06, T:0.42
Consensus pattern (36 bp):
TTCTTCCTCACTCGCATCTTCTTACTCACCTACAAC
Found at i:56923669 original size:39 final size:39
Alignment explanation
Indices: 56923585--56923741 Score: 176
Period size: 39 Copynumber: 4.0 Consensus size: 39
56923575 CAAATCCAAT
* * *
56923585 CACCACCAC-AAAGCATGCGGGACTTTAAGCCCGGATATAA
1 CACCAGCACGAAAGCCTTCGGGAC-TT-AGCCCGGATATAA
*
56923625 TACCAGCAC-AAAG-CTTGCGGGACTTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTT-CGGGAC-TTAGCCCGGATATAA
* * *
56923664 CACCAGCACGAATGCCTTCGGGGCTTAACCCGGATATAA
1 CACCAGCACGAAAGCCTTCGGGACTTAGCCCGGATATAA
* *
56923703 CACCAGCACGAATGCCTTCGGGACTTAGCCCGTATATAA
1 CACCAGCACGAAAGCCTTCGGGACTTAGCCCGGATATAA
56923742 TTCTCCATTA
Statistics
Matches: 103, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
39 72 0.70
40 28 0.27
41 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.18
Consensus pattern (39 bp):
CACCAGCACGAAAGCCTTCGGGACTTAGCCCGGATATAA
Found at i:56925610 original size:47 final size:47
Alignment explanation
Indices: 56925523--56925716 Score: 325
Period size: 47 Copynumber: 4.1 Consensus size: 47
56925513 TTTCCACTTC
* * * * *
56925523 CATCCCATTGACCATTCGGCCTTATCATATATATATACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
56925570 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
56925617 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
56925664 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCAC--ATACATACACTTTCACATT
56925713 CATC
1 CATC
56925717 GTAACAAAAT
Statistics
Matches: 140, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
47 117 0.84
49 23 0.16
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.34
Consensus pattern (47 bp):
CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATT
Found at i:56928457 original size:40 final size:40
Alignment explanation
Indices: 56928374--56928593 Score: 259
Period size: 40 Copynumber: 5.5 Consensus size: 40
56928364 ACCCAAGTAT
** * *
56928374 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
56928412 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
56928452 CTTCGGGACTTAGCCCGAATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
56928492 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
56928532 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
56928572 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
56928594 CATTCGAATA
Statistics
Matches: 154, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.10
40 125 0.81
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:56936654 original size:40 final size:40
Alignment explanation
Indices: 56936607--56936789 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
56936597 ACTCCACAAG
* *
56936607 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
56936647 GCCTTCGGGACTTAGCCC-GATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
56936686 GCCTTCGGGTCTTAGCCCAGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
56936726 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
56936766 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
56936790 CATTCGAATA
Statistics
Matches: 124, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 36 0.29
40 87 0.70
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:56936709 original size:79 final size:80
Alignment explanation
Indices: 56936607--56936789 Score: 246
Period size: 79 Copynumber: 2.3 Consensus size: 80
56936597 ACTCCACAAG
* *
56936607 GCCTTCGGGTCTTAGCCCGGATATGGTC-ACTAGCATAAATGCCTTCGGGA-CTTAG-CCCGATA
1 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTC-GGATCTTAGTCCCGATA
* *
56936669 TAGTCGCTAGCACAAAT
64 TAGTCACTAGCACAAAA
* * *
56936686 GCCTTCGGGTCTTAGCCCAGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATA
1 GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGATCTTAGTCCCGATATA
*
56936751 GTCACTAGCATAAAA
66 GTCACTAGCACAAAA
*
56936766 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
56936790 CATTCGAATA
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
78 4 0.04
79 45 0.49
80 42 0.46
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGATCTTAGTCCCGATATA
GTCACTAGCACAAAA
Found at i:56944858 original size:40 final size:40
Alignment explanation
Indices: 56944811--56944994 Score: 253
Period size: 40 Copynumber: 4.6 Consensus size: 40
56944801 CTCACACAAG
* *
56944811 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
56944851 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
56944891 GCCTTCGGGTCTTAGCCCAGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
56944931 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
56944971 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
56944995 CATTCGAATA
Statistics
Matches: 125, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 123 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:56955039 original size:43 final size:42
Alignment explanation
Indices: 56954874--56955041 Score: 158
Period size: 43 Copynumber: 4.0 Consensus size: 42
56954864 ATAAAGCTCG
* * * * *
56954874 TACAATGCC-ATATCTCAGATATGGTCTTACATGTTATCACA
1 TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCATA
** * * * * *
56954915 TATCGGTGCCACTGTGCCAGACAGGGTCTTACACGAAATCATA
1 TA-CAATGCCAATATCCCAGACATGGTCTTACACGTAATCATA
* *
56954958 TAACGATGCCAATATCCCAAACATGGTCTTACACGTAATCATAA
1 T-ACAATGCCAATATCCCAGACATGGTCTTACACGTAATCAT-A
* *
56955002 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCA
1 TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCA
56955042 CATCTCGATA
Statistics
Matches: 100, Mismatches: 23, Indels: 6
0.78 0.18 0.05
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
43 90 0.90
44 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (42 bp):
TACAATGCCAATATCCCAGACATGGTCTTACACGTAATCATA
Found at i:56957279 original size:148 final size:148
Alignment explanation
Indices: 56957008--56957303 Score: 448
Period size: 148 Copynumber: 2.0 Consensus size: 148
56956998 AGGGAGTATA
* * * * *
56957008 TATATTGGTGTGTGTGAAGAAAAAAATTTCTTAATTCTTTTTACGATTTTTATTCTTTCCATAAC
1 TATATAGGTATGTGTGAAGAAAAAAATTTCTTAATTCTTTTAACGATTCTTACTCTTTCCATAAC
* * *
56957073 ATCATTTTCTTTAGTTGCTCTGAAGAAGAAGAGGATAAGGTTGAAGGAAGCTCTGCATGTCGCAA
66 ATCATTTTCTTCAGTTGCTCTGAAGAAGAAGAGGATAAGGTTGAAGGAAGCTCCGCATGTCACAA
*
56957138 TAATCGTGAGAATTGAAG
131 CAATCGTGAGAATTGAAG
* * * *
56957156 TATATAGGTATGTGTGAAGACATAATTTTCTTAATTCTTTTAACGATTCTTACTCTTTCCATATC
1 TATATAGGTATGTGTGAAGAAAAAAATTTCTTAATTCTTTTAACGATTCTTACTCTTTCCATAAC
* *
56957221 ATCATTTTCTTCAGTTGCTCTGAAGAAGCAGATGATAAGGTTGAAGGAAGCTCCGCATGTCACAA
66 ATCATTTTCTTCAGTTGCTCTGAAGAAGAAGAGGATAAGGTTGAAGGAAGCTCCGCATGTCACAA
*
56957286 CAGTCGTGAGAATTGAAG
131 CAATCGTGAGAATTGAAG
56957304 CCTGATAATA
Statistics
Matches: 132, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
148 132 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (148 bp):
TATATAGGTATGTGTGAAGAAAAAAATTTCTTAATTCTTTTAACGATTCTTACTCTTTCCATAAC
ATCATTTTCTTCAGTTGCTCTGAAGAAGAAGAGGATAAGGTTGAAGGAAGCTCCGCATGTCACAA
CAATCGTGAGAATTGAAG
Found at i:56965752 original size:14 final size:14
Alignment explanation
Indices: 56965733--56965767 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
56965723 CATAAATCAC
56965733 TTTTTTTTTC-AAT
1 TTTTTTTTTCGAAT
56965746 TTTTTTTTTCGAAT
1 TTTTTTTTTCGAAT
56965760 TTTTTTTT
1 TTTTTTTT
56965768 CAAACTTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.11, C:0.06, G:0.03, T:0.80
Consensus pattern (14 bp):
TTTTTTTTTCGAAT
Found at i:56970415 original size:25 final size:25
Alignment explanation
Indices: 56970377--56970427 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
56970367 TAGTCCCTGC
*
56970377 TAGCTAGATGGTAAAGTAGATTAAT
1 TAGCTAGATAGTAAAGTAGATTAAT
56970402 TAGCTAGATAGTAAAGTAGATTAAT
1 TAGCTAGATAGTAAAGTAGATTAAT
56970427 T
1 T
56970428 TATCTTGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.33
Consensus pattern (25 bp):
TAGCTAGATAGTAAAGTAGATTAAT
Found at i:56976068 original size:20 final size:20
Alignment explanation
Indices: 56976043--56976080 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
56976033 GGCCAGTTCA
56976043 ATTGAAGATCACAAGTCTCG
1 ATTGAAGATCACAAGTCTCG
56976063 ATTGAAGATCACAAGTCT
1 ATTGAAGATCACAAGTCT
56976081 ACTTCCGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (20 bp):
ATTGAAGATCACAAGTCTCG
Found at i:56979369 original size:35 final size:35
Alignment explanation
Indices: 56979319--56979394 Score: 145
Period size: 35 Copynumber: 2.2 Consensus size: 35
56979309 ACCTGTTCGG
56979319 TGAA-AAGTCTAGTCTTGCATGTTTGTGAAAGTGA
1 TGAAGAAGTCTAGTCTTGCATGTTTGTGAAAGTGA
56979353 TGAAGAAGTCTAGTCTTGCATGTTTGTGAAAGTGA
1 TGAAGAAGTCTAGTCTTGCATGTTTGTGAAAGTGA
56979388 TGAAGAA
1 TGAAGAA
56979395 CCTTACTCTG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 4 0.10
35 37 0.90
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.33
Consensus pattern (35 bp):
TGAAGAAGTCTAGTCTTGCATGTTTGTGAAAGTGA
Found at i:56979601 original size:75 final size:74
Alignment explanation
Indices: 56979477--56979670 Score: 228
Period size: 75 Copynumber: 2.6 Consensus size: 74
56979467 TTCATGGCAC
* * * * * * * *
56979477 TGCCTTTGATGGAATATCCATTGAATTAGCAGATCGAGGCATATGAAACATGACTCTATAATGAA
1 TGCCTTTGATGAAATAT-CATTGAACTGGCAGATCGTGGTACATAAAACATGACTCTACAATGAA
*
56979542 TTCATGATGT
65 TTCATGACGT
*
56979552 TGCCTTTGATGAAATATCTATTGAACTGGCAGATTGTGGTACATAAAACATGACTCTACAATGAA
1 TGCCTTTGATGAAATATC-ATTGAACTGGCAGATCGTGGTACATAAAACATGACTCTACAATGAA
56979617 TTCATGACGT
65 TTCATGACGT
* * *
56979627 TTCCTTCGATGCAAAGT-GCATTGAACTGGCAGATCGTGGTACAT
1 TGCCTTTGATG-AAA-TATCATTGAACTGGCAGATCGTGGTACAT
56979671 GAATAATGGT
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
74 1 0.01
75 96 0.94
76 4 0.04
77 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (74 bp):
TGCCTTTGATGAAATATCATTGAACTGGCAGATCGTGGTACATAAAACATGACTCTACAATGAAT
TCATGACGT
Found at i:56992346 original size:57 final size:58
Alignment explanation
Indices: 56992261--56992370 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 58
56992251 AAATTGATAG
* * * *
56992261 AAATGGAGAAATGTGAAACATTTGAAAATGATTATGGTTTTCCCTAAAATGAAAATGA
1 AAATGAAGAAATGAGAAACATTTGAAAATGAATATGGCTTTCCCTAAAATGAAAATGA
* * *
56992319 AAATGAAGAAAT-AGAATCATTTGAAAATGAATGTGGCTTTCTCTAAAATGAA
1 AAATGAAGAAATGAGAAACATTTGAAAATGAATATGGCTTTCCCTAAAATGAA
56992371 TTTATATTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 34 0.76
58 11 0.24
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.29
Consensus pattern (58 bp):
AAATGAAGAAATGAGAAACATTTGAAAATGAATATGGCTTTCCCTAAAATGAAAATGA
Found at i:56998233 original size:20 final size:20
Alignment explanation
Indices: 56998208--56998255 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
56998198 TGACTGAATA
56998208 AGTTAAATTTAAATTTATTT
1 AGTTAAATTTAAATTTATTT
*
56998228 AGTTAAATTTGAATTTATTT
1 AGTTAAATTTAAATTTATTT
*
56998248 AGATAAAT
1 AGTTAAAT
56998256 AATTAAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (20 bp):
AGTTAAATTTAAATTTATTT
Found at i:56998678 original size:43 final size:42
Alignment explanation
Indices: 56998520--56998676 Score: 129
Period size: 43 Copynumber: 3.7 Consensus size: 42
56998510 TAGGATTTCG
* **
56998520 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTATGTTTTATG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TTATG-ATTACA
* * * * *
56998564 TGTAAGACCATGTCTGGGACATTGACATCG-TATCTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TATGATTACA
** * * *
56998606 TGTAAGACCTTGTCTGGGATAG-TGGCATTGATGTTTGATTACA
1 TGTAAGACCACGTCTGGGA-CGTTGGCATCGAT-TATGATTACA
*
56998649 TGTAAGACCACGTCTGGGACGTCGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
56998677 TGTTTATGTT
Statistics
Matches: 89, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
42 28 0.31
43 34 0.38
44 27 0.30
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATTATGATTACA
Found at i:57006859 original size:15 final size:15
Alignment explanation
Indices: 57006839--57006875 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
57006829 ATGAAATTAA
57006839 AAAAATAAAA-AAATT
1 AAAAATAAAAGAAA-T
57006854 AAAAATAAAAGAAAT
1 AAAAATAAAAGAAAT
57006869 AAAAATA
1 AAAAATA
57006876 TTGTATCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (15 bp):
AAAAATAAAAGAAAT
Found at i:57006868 original size:9 final size:8
Alignment explanation
Indices: 57006836--57006873 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
57006826 AAAATGAAAT
57006836 TAAAAAAA
1 TAAAAAAA
57006844 TAAAAAAA
1 TAAAAAAA
*
57006852 T-TAAAAA
1 TAAAAAAA
57006859 TAAAAGAAA
1 TAAAA-AAA
57006868 TAAAAA
1 TAAAAA
57006874 TATTGTATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 6 0.23
8 12 0.46
9 8 0.31
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Found at i:57007253 original size:13 final size:14
Alignment explanation
Indices: 57007225--57007267 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
57007215 AAACAAAGAT
* *
57007225 AATATCATAAACTA
1 AATAACATAAAATA
57007239 AATAAC-TAAAATA
1 AATAACATAAAATA
*
57007252 AATAACAAAAAATA
1 AATAACATAAAATA
57007266 AA
1 AA
57007268 ATACAAACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (14 bp):
AATAACATAAAATA
Found at i:57015943 original size:19 final size:19
Alignment explanation
Indices: 57015919--57015956 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
57015909 TTAAAAAATA
57015919 ATTATTTAGTTTTATTTTT
1 ATTATTTAGTTTTATTTTT
57015938 ATTATTTAGTTTTATTTTT
1 ATTATTTAGTTTTATTTTT
57015957 GAAATTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (19 bp):
ATTATTTAGTTTTATTTTT
Found at i:57029520 original size:26 final size:27
Alignment explanation
Indices: 57029464--57029549 Score: 70
Period size: 26 Copynumber: 3.2 Consensus size: 27
57029454 TTGTCATGGT
*
57029464 AGACTTCTCGTGTTTACT-ATCTCGAC
1 AGACTTCCCGTGTTTACTGATCTCGAC
* * *
57029490 GGACTTCCCGTGTTTACTGCTCT-GGC
1 AGACTTCCCGTGTTTACTGATCTCGAC
* **
57029516 AGACTTACCTTGTGTTTACTG-TCTTAAC
1 AGACTT-CC-CGTGTTTACTGATCTCGAC
57029544 AGACTT
1 AGACTT
57029550 ACTCTATGGA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
26 23 0.48
27 8 0.17
28 17 0.35
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.38
Consensus pattern (27 bp):
AGACTTCCCGTGTTTACTGATCTCGAC
Found at i:57031033 original size:44 final size:42
Alignment explanation
Indices: 57030960--57031059 Score: 114
Period size: 45 Copynumber: 2.4 Consensus size: 42
57030950 TTATATTACT
**
57030960 TTAATTAA-TTAAATATAAAATAATCATTTAATA-TTATCAC
1 TTAATTAATTTAAATATAAAATAAAAATTTAATATTTATCAC
* *
57031000 TTAATTAATTTAAATATGATAATATAAAAATTTATTATTTATCTC
1 TTAATTAATTTAAATAT-A-AA-ATAAAAATTTAATATTTATCAC
*
57031045 TTATTTAATTTAAAT
1 TTAATTAATTTAAAT
57031060 TAATTAGAGA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
40 8 0.16
41 8 0.16
42 1 0.02
43 2 0.04
44 11 0.22
45 20 0.40
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.48
Consensus pattern (42 bp):
TTAATTAATTTAAATATAAAATAAAAATTTAATATTTATCAC
Found at i:57031075 original size:44 final size:45
Alignment explanation
Indices: 57030985--57031080 Score: 108
Period size: 45 Copynumber: 2.2 Consensus size: 45
57030975 TAAAATAATC
* * * *
57030985 ATTTAATA-TTATCACTTAATTAATTTAAATATGATAATATAAAA
1 ATTTATTATTTATCACTTAATTAATTTAAATATAATAAGAGAAAA
* * *
57031029 ATTTATTATTTATCTCTTATTTAATTTAAAT-TAATTAGAGAAAA
1 ATTTATTATTTATCACTTAATTAATTTAAATATAATAAGAGAAAA
57031073 A-TTATTAT
1 ATTTATTAT
57031081 GACAAAGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
43 7 0.16
44 17 0.39
45 20 0.45
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (45 bp):
ATTTATTATTTATCACTTAATTAATTTAAATATAATAAGAGAAAA
Found at i:57032829 original size:42 final size:42
Alignment explanation
Indices: 57032773--57032868 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 42
57032763 ATAGCCTAGC
* *
57032773 TATGGTCTTA-ACGAAGCCTCATATCGATTCCATATCCCAGA
1 TATGGTCTTACACGAAGCCTCATATCGATGCCATAACCCAGA
* * *
57032814 TATGGTCTTACACGAAGTCTTATATTGATGCCATAACCCAGA
1 TATGGTCTTACACGAAGCCTCATATCGATGCCATAACCCAGA
57032856 TATGGTCTTACAC
1 TATGGTCTTACAC
57032869 ATAATCTTAG
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 10 0.20
42 39 0.80
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (42 bp):
TATGGTCTTACACGAAGCCTCATATCGATGCCATAACCCAGA
Found at i:57036957 original size:17 final size:18
Alignment explanation
Indices: 57036935--57036969 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
57036925 TCACATTAAA
57036935 GTGTTTT-AGTGAAAACC
1 GTGTTTTCAGTGAAAACC
*
57036952 GTGTTTTCATTGAAAACC
1 GTGTTTTCAGTGAAAACC
57036970 CTTCTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACC
Found at i:57038097 original size:30 final size:30
Alignment explanation
Indices: 57038022--57038114 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
57038012 TGACCCACTT
* *
57038022 GGCCCAATCTCAT-TT-ATATGGCCAATC-
1 GGCCCAATTTCATATTCATATGGCCCATCA
** *
57038049 GGCCTGA-TTCACATTCATATGGCCCATCA
1 GGCCCAATTTCATATTCATATGGCCCATCA
*
57038078 GGCCCAATTTCATATTCATATGGCCCATTA
1 GGCCCAATTTCATATTCATATGGCCCATCA
57038108 GGCCCAA
1 GGCCCAA
57038115 ATCACCTTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
26 3 0.06
27 7 0.13
28 11 0.21
29 5 0.09
30 27 0.51
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (30 bp):
GGCCCAATTTCATATTCATATGGCCCATCA
Found at i:57038137 original size:29 final size:29
Alignment explanation
Indices: 57038065--57038151 Score: 111
Period size: 29 Copynumber: 3.0 Consensus size: 29
57038055 ATTCACATTC
* * ** *
57038065 ATATGGCCCATCAGGCCCAATTTCATATTC
1 ATATGGCCCATTAGGCCCAA-ATCACCTTT
57038095 ATATGGCCCATTAGGCCCAAATCACCTTT
1 ATATGGCCCATTAGGCCCAAATCACCTTT
*
57038124 ATATGGCCCGTTAGGCCCAAATCACCTT
1 ATATGGCCCATTAGGCCCAAATCACCTT
57038152 ACATTCATGC
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 32 0.63
30 19 0.37
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACCTTT
Found at i:57038390 original size:16 final size:16
Alignment explanation
Indices: 57038366--57038408 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
57038356 GTAGCCAAAC
*
57038366 TTTCGGCTTTTCGACA
1 TTTCAGCTTTTCGACA
57038382 TTTCAGCTTTTCGACA
1 TTTCAGCTTTTCGACA
57038398 TTTCAGCTTTT
1 TTTCAGCTTTT
57038409 GCCGATCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.49
Consensus pattern (16 bp):
TTTCAGCTTTTCGACA
Found at i:57038495 original size:34 final size:34
Alignment explanation
Indices: 57038457--57038525 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
57038447 GTAAGCAAGC
57038457 GTGTTGCGATTCCTTTAGTCACCAACCTACAAAT
1 GTGTTGCGATTCCTTTAGTCACCAACCTACAAAT
57038491 GTGTTGCGATTCCTTTAGTCACCAACCTACAAAT
1 GTGTTGCGATTCCTTTAGTCACCAACCTACAAAT
57038525 G
1 G
57038526 ATATCACCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (34 bp):
GTGTTGCGATTCCTTTAGTCACCAACCTACAAAT
Found at i:57042644 original size:30 final size:30
Alignment explanation
Indices: 57042562--57042666 Score: 123
Period size: 30 Copynumber: 3.6 Consensus size: 30
57042552 CATACATACG
*
57042562 TATGGCCCACTT-GGCCCAATCTCAT-TT-A
1 TATGGCCCA-TTAGGCCCAATTTCATATTCA
* *
57042590 TATGG--CATATCGGCCCGA-TTCATATTCA
1 TATGGCCCAT-TAGGCCCAATTTCATATTCA
57042618 TATGGCCCATTAGGCCCAATTTCATATTCA
1 TATGGCCCATTAGGCCCAATTTCATATTCA
57042648 TATGGCCCATTAGGCCCAA
1 TATGGCCCATTAGGCCCAA
57042667 ATCACCTTTA
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
25 1 0.02
26 7 0.11
27 8 0.12
28 11 0.17
29 7 0.11
30 32 0.48
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (30 bp):
TATGGCCCATTAGGCCCAATTTCATATTCA
Found at i:57047750 original size:42 final size:42
Alignment explanation
Indices: 57047629--57047783 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 42
57047619 ACCATACCAT
* * *
57047629 TGCCATATCCCAGATATGGTCTTACATGTTA-TCTCGTATCGA
1 TGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCGA
* * * * * *
57047671 TGCCAATAGCCTAGCTATGGTCTTACATGAAGCCTCATATCAA
1 TGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCGA
*
57047714 TGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATTGA
1 TGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCGA
*
57047756 TGGCATATCCCAGATATGGTCTTACACG
1 TGCCATATCCCAGATATGGTCTTACACG
57047784 TAATCTTAGT
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
42 63 0.66
43 33 0.34
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (42 bp):
TGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCGA
Found at i:57049571 original size:22 final size:24
Alignment explanation
Indices: 57049527--57049572 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
57049517 GATTAAATCT
57049527 AATAATCAACAACGTACATAAAAAG
1 AATAATCAACAACGTA-ATAAAAAG
*
57049552 AATAATCAACAAGGTAA-AAAA
1 AATAATCAACAACGTAATAAAA
57049573 TAATAACCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 1 0.05
25 15 0.75
ACGTcount: A:0.63, C:0.13, G:0.09, T:0.15
Consensus pattern (24 bp):
AATAATCAACAACGTAATAAAAAG
Found at i:57049577 original size:22 final size:24
Alignment explanation
Indices: 57049526--57049578 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
57049516 TGATTAAATC
57049526 TAATAATCAACAACGTACATAAAAA
1 TAATAATCAACAACGTA-ATAAAAA
* *
57049551 GAATAATCAACAAGGT-A-AAAAA
1 TAATAATCAACAACGTAATAAAAA
57049573 TAATAA
1 TAATAA
57049579 CCGTAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 10 0.40
23 1 0.04
25 14 0.56
ACGTcount: A:0.62, C:0.11, G:0.08, T:0.19
Consensus pattern (24 bp):
TAATAATCAACAACGTAATAAAAA
Found at i:57053769 original size:29 final size:29
Alignment explanation
Indices: 57053706--57053773 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
57053696 TAATCAACCG
*
57053706 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
57053735 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
57053764 CGCACACTTA
1 CGCACACTTA
57053774 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:57053963 original size:133 final size:155
Alignment explanation
Indices: 57053652--57054046 Score: 451
Period size: 137 Copynumber: 2.6 Consensus size: 155
57053642 TCATGTAAAT
57053652 AATTTATAGAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAG
1 AATTTATAGAAAATATATATTG-GTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAG
*
57053717 TGCCATGTACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCACACTTACCTTTTCC
65 TG-CATG-ACATTAAACTCACACAC-TAGTGCCATGCATTTCAAGTTCGCACACTT--CTTTTCC
57053782 GCTGTCCAAATGACTCGTAAGTCGCACCTTATGTA
125 GCTGTCCAAAT-A-TCGTAAGTCGCA-C-TATGTA
57053817 AATAATTAT---AAA-ATATATT-GTTCGCACACATAGTGC-TAATAATCAA-C-CGCACACTTA
1 AAT--TTATAGAAAATATATATTGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTA
57053874 GTGCATG-CATTAAA-T-A-A-A-TAGTG-CATGCA-TTCAAGTTCGCACAC-T-TTTT-CGCTG
64 GTGCATGACATTAAACTCACACACTAGTGCCATGCATTTCAAGTTCGCACACTTCTTTTCCGCTG
57053928 T-CAAAT-T-GT-AGTCGCA-TATGTA
129 TCCAAATATCGTAAGTCGCACTATGTA
57053950 AATTTATAGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAG
1 AATTTATAGAAAATATATATT-GGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAG
* *
57054015 TGCCATGTACTTTAAACTCGCACACTTAGTGC
65 TG-CATG-ACATTAAACTCACACAC-TAGTGC
57054047 TGTACAATTT
Statistics
Matches: 206, Mismatches: 3, Indels: 57
0.77 0.01 0.21
Matches are distributed among these distances:
131 4 0.02
133 9 0.04
134 3 0.01
135 7 0.03
136 7 0.03
137 19 0.09
138 11 0.05
139 1 0.00
140 13 0.06
141 9 0.04
142 6 0.03
143 10 0.05
144 1 0.00
146 2 0.01
147 16 0.08
148 6 0.03
149 10 0.05
151 1 0.00
152 1 0.00
153 1 0.00
154 1 0.00
155 6 0.03
157 4 0.02
158 13 0.06
159 1 0.00
160 10 0.05
161 17 0.08
163 7 0.03
164 3 0.01
165 3 0.01
167 4 0.02
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.31
Consensus pattern (155 bp):
AATTTATAGAAAATATATATTGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGT
GCATGACATTAAACTCACACACTAGTGCCATGCATTTCAAGTTCGCACACTTCTTTTCCGCTGTC
CAAATATCGTAAGTCGCACTATGTA
Found at i:57054038 original size:29 final size:30
Alignment explanation
Indices: 57053999--57054077 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
57053989 CTTAATAATC
57053999 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
57054029 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
57054058 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
57054078 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:57057091 original size:23 final size:22
Alignment explanation
Indices: 57057040--57057091 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
57057030 CCTCATCTTT
*
57057040 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
57057062 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
57057085 TTCTTTT
1 TTCTTTT
57057092 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:57069555 original size:27 final size:27
Alignment explanation
Indices: 57069524--57069701 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
57069514 TGAATTGTAC
57069524 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
57069551 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57069577 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
57069605 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
57069633 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57069660 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57069687 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57069702 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57069589 original size:54 final size:55
Alignment explanation
Indices: 57069499--57069701 Score: 216
Period size: 54 Copynumber: 3.7 Consensus size: 55
57069489 GAGATTGGCG
* * *
57069499 CTAAGTGTGCGGGATTGAAT-TGTACAGCACTAAGTGTGCGATTTGACTATGTTGCA
1 CTAAGTGTGC-GAATTGAATATG-ATAGCACTAAGTGTGCGATTTGACTATGTAGCA
* * * **
57069555 CTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCGGCA
1 CTAAGTGTGCGAATTGAATATGATAGCACTAAGTGTGCGATTTGACTATGTAGCA
* * * *
57069609 CTAAGTGTGCGAGTTTGACTATG-TAGCACTAAGTGTGCGATTTGATTACGTAGCA
1 CTAAGTGTGCGA-ATTGAATATGATAGCACTAAGTGTGCGATTTGACTATGTAGCA
* * *
57069664 CTAAGTGTGCGAGTTGATTAT-ATAGCACTGAGTGTGCG
1 CTAAGTGTGCGAATTGAATATGATAGCACTAAGTGTGCG
57069702 GACTCAATAT
Statistics
Matches: 124, Mismatches: 19, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
54 61 0.49
55 51 0.41
56 12 0.10
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
CTAAGTGTGCGAATTGAATATGATAGCACTAAGTGTGCGATTTGACTATGTAGCA
Found at i:57069692 original size:82 final size:81
Alignment explanation
Indices: 57069499--57069701 Score: 237
Period size: 82 Copynumber: 2.5 Consensus size: 81
57069489 GAGATTGGCG
* * *
57069499 CTAAGTGTGCGGGATTGAATTGTACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTG
1 CTAAGTGTGCGAG-TTG-ATTATACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTG
*
57069564 CGAAATGAATATGATGCA
64 CGAAATGAATACGATGCA
* ** * *
57069582 CTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGC
1 CTAAGTGTGCGAGTTGATTATACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGC
** *
57069647 GATTTGATTACG-TAGCA
65 GAAATGAATACGAT-GCA
* *
57069664 CTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 CTAAGTGTGCGAGTTGATTATACAGCACTAAGTGTGCG
57069702 GACTCAATAT
Statistics
Matches: 99, Mismatches: 19, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
81 19 0.19
82 69 0.70
83 11 0.11
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
CTAAGTGTGCGAGTTGATTATACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCG
AAATGAATACGATGCA
Found at i:57071333 original size:327 final size:324
Alignment explanation
Indices: 57070742--57071381 Score: 808
Period size: 327 Copynumber: 2.0 Consensus size: 324
57070732 CCCCGTGCAG
** * * * * *
57070742 GGAGATATCCAAGTCGTAATGGGCAAAGGTCAGTGTAGTCGACCCCTGCAATATGGGAGACTTTG
1 GGAGATATCCAAGTCGTAATGCACAAAGGTCAGAGTAGTCGAACCCAGCAACATGGGAGACTTTA
* * *
57070807 ACTAATAAACTGTACTAATTGGCCCGACCAAAAATTCTAGAAAAAAATACATAGATGGGCACATG
66 ACTAATAAACTGTACCAATTGGCCCGACCAAAAATTCTACAAAAAAATACATA-ATGAGCACATG
* * *
57070872 AGTCTAGTTTCTGGGAAAAATCACGAAACTGATTTTCGAGTTACGAAATTCAAGATATGATTTTT
130 AGTCTAGTTCCGGGGAAAAATCACGAAACTGATTTTCGAGTTACGAAACTCAAGATATGATTTTT
57070937 AAAACGACTAGTACACAGATTGGGCAGTGTCTGGAAAATAAATTTTATAAGGGGTTAAAGTCAGT
195 AAAACGACTAGTACACAGATTGGGCAGTGTCTGGAAAAT--ATTTTATAAGGGGTTAAAGTCAGT
* * *
57071002 TAACACCTCGTGTTCGACTCCGGTGTCGGTTTCGGGTTCGGGGTGTTACAATTGAAGCTCTATAA
258 TAACACCTCGTGTTCGACTCCGGCGACGGTCTCGGGTTCGGGGTGTTACAATTGAAGCTCTATAA
57071067 AA
323 AA
* *
57071069 GGAGATATCTAAGTCGTAATGCACAAAGGTCAGAGTAGTCGAACCCAGGAACA-GGGACGACTTT
1 GGAGATATCCAAGTCGTAATGCACAAAGGTCAGAGTAGTCGAACCCAGCAACATGGGA-GACTTT
*** * *
57071133 AACTAATAAACTGTACCAATTGGCCCGACCAAAAATTCTACAAAACTTCTACCAT-AT-AGTATA
65 AACTAATAAACTGTACCAATTGGCCCGACCAAAAATTCTACAAAA-AAATA-CATAATGAGCACA
* * * *
57071196 TGAGTCTAGTTCCGGGGAAAATTTACGGAACTAGA-TTTCGAGTTTC-AGAACTCAAGATATGAT
128 TGAGTCTAGTTCCGGGGAAAAATCACGAAACT-GATTTTCGAGTTACGA-AACTCAAGATATGA-
** * * * *
57071259 TTTTTAAAGTGACTAGTACGCAGATT-GGCAGCTTGTCTGGGAAAT-TTTTAATAAGTGGTTTGA
190 TTTTTAAAACGACTAGTACACAGATTGGGCAG--TGTCTGGAAAATATTTT-ATAAG-GGGTTAA
*
57071322 AGTCTGTTAACACCTCGTGTTCGACTCCGGCGACGGTCTCGGGTTCGGGGTGTTACAATT
251 AGTCAGTTAACACCTCGTGTTCGACTCCGGCGACGGTCTCGGGTTCGGGGTGTTACAATT
57071382 TAATTGGTAT
Statistics
Matches: 269, Mismatches: 34, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
325 5 0.02
326 67 0.25
327 181 0.67
328 13 0.05
329 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (324 bp):
GGAGATATCCAAGTCGTAATGCACAAAGGTCAGAGTAGTCGAACCCAGCAACATGGGAGACTTTA
ACTAATAAACTGTACCAATTGGCCCGACCAAAAATTCTACAAAAAAATACATAATGAGCACATGA
GTCTAGTTCCGGGGAAAAATCACGAAACTGATTTTCGAGTTACGAAACTCAAGATATGATTTTTA
AAACGACTAGTACACAGATTGGGCAGTGTCTGGAAAATATTTTATAAGGGGTTAAAGTCAGTTAA
CACCTCGTGTTCGACTCCGGCGACGGTCTCGGGTTCGGGGTGTTACAATTGAAGCTCTATAAAA
Found at i:57077751 original size:28 final size:28
Alignment explanation
Indices: 57077685--57077812 Score: 166
Period size: 28 Copynumber: 4.5 Consensus size: 28
57077675 CATGAGATTG
* * **
57077685 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
57077714 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
57077742 GCACTAAGTGTGTGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
57077771 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
57077799 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
57077813 GACTTACTAT
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
28 44 0.51
29 43 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:57079609 original size:29 final size:28
Alignment explanation
Indices: 57079577--57079631 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
57079567 GCTAGTTATA
*
57079577 CTGATTTGGCTTTGGGCCATGCATATCGG
1 CTGATTTGGCTTTAGGCCATG-ATATCGG
*
57079606 CTGATTTGGCTTTAGGCTATGATATC
1 CTGATTTGGCTTTAGGCCATGATATC
57079632 AGTACTTCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.16, C:0.18, G:0.27, T:0.38
Consensus pattern (28 bp):
CTGATTTGGCTTTAGGCCATGATATCGG
Found at i:57098343 original size:40 final size:40
Alignment explanation
Indices: 57098299--57098374 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
57098289 ATTGTATGAT
* * *
57098299 TGCACATACGTGCTCTTGTTTGTACTTCGGTACCCCTAAA
1 TGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTAAA
* *
57098339 TGCACATACGTGCCCCTATTTGTACTTTGGTGCCCC
1 TGCACATACGTGCCCCTATTTGTACTTCGGTACCCC
57098375 GATTCCGACG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.17, C:0.30, G:0.18, T:0.34
Consensus pattern (40 bp):
TGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTAAA
Found at i:57105131 original size:31 final size:31
Alignment explanation
Indices: 57105096--57105160 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
57105086 TGGTATTTTT
57105096 GTGCTTAAATGGTTGGTGTTGAAATAATCAA
1 GTGCTTAAATGGTTGGTGTTGAAATAATCAA
57105127 GTGCTTAAATGGTTGGTGTTGAAATAATCAA
1 GTGCTTAAATGGTTGGTGTTGAAATAATCAA
57105158 GTG
1 GTG
57105161 AAAGTATATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.35
Consensus pattern (31 bp):
GTGCTTAAATGGTTGGTGTTGAAATAATCAA
Found at i:57108240 original size:40 final size:40
Alignment explanation
Indices: 57108188--57108538 Score: 562
Period size: 40 Copynumber: 8.8 Consensus size: 40
57108178 ATTACCACAA
* * * ** *
57108188 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
* * *
57108228 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
* *
57108268 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGG--ATATATCAACTC
57108310 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
57108350 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
*
57108390 G--CAAATGCTTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
57108428 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
57108468 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
57108508 GCACAAATGCCTGCGGGTCTTAGCCCGGATA
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATA
57108539 AAATCCAAAT
Statistics
Matches: 293, Mismatches: 14, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
38 37 0.13
40 219 0.75
42 37 0.13
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
Found at i:57108459 original size:118 final size:118
Alignment explanation
Indices: 57108188--57108538 Score: 542
Period size: 118 Copynumber: 2.9 Consensus size: 118
57108178 ATTACCACAA
* * * ** * * *
57108188 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
*
57108253 CGGATATATCAACTTGCACAATTGCCTT-CGGGTCTTAGCCCGGATATATATCAACTC
66 CGGATATATCAACTCGCA-AA-TG-CTTGCGGGTCTTAGCCCGG--ATATATCAACTC
57108310 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
57108375 CGGATATATCAACTCGCAAATGCTTGCGGGTCTTAGCCCGGATATATCAACTC
66 CGGATATATCAACTCGCAAATGCTTGCGGGTCTTAGCCCGGATATATCAACTC
57108428 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
*
57108493 CGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCCCGGATA
66 CGGATATATCAACTCG--CAAATGCTTGCGGGTCTTAGCCCGGATA
57108539 AAATCCAAAT
Statistics
Matches: 216, Mismatches: 10, Indels: 8
0.92 0.04 0.03
Matches are distributed among these distances:
118 93 0.43
119 3 0.01
120 44 0.20
121 2 0.01
122 74 0.34
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (118 bp):
GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTGCGGGTCTTAGCC
CGGATATATCAACTCGCAAATGCTTGCGGGTCTTAGCCCGGATATATCAACTC
Found at i:57112674 original size:34 final size:33
Alignment explanation
Indices: 57112581--57112674 Score: 118
Period size: 34 Copynumber: 2.8 Consensus size: 33
57112571 GTGAATACAT
* *
57112581 TCTGGGCCTAAGCCCATATT-AGTAACAATAGCAG
1 TCTGGG-CTTAGCCCAT-TTCAGTAATAATAGCAG
*
57112615 TCTGGGGCTTAGCCCATTTCAGTAATAGTAGCAG
1 TCT-GGGCTTAGCCCATTTCAGTAATAATAGCAG
57112649 TCTGGGCTTTAGCCCATTTCAGTAAT
1 TCTGGGC-TTAGCCCATTTCAGTAAT
57112675 CGTAATCAGT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
33 6 0.11
34 45 0.83
35 3 0.06
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (33 bp):
TCTGGGCTTAGCCCATTTCAGTAATAATAGCAG
Found at i:57112726 original size:18 final size:19
Alignment explanation
Indices: 57112676--57112726 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
57112666 TTCAGTAATC
57112676 GTAATCAGTGTAGTAACCA
1 GTAATCAGTGTAGTAACCA
* *
57112695 -TGATCAATGTAGTAA-CA
1 GTAATCAGTGTAGTAACCA
*
57112712 GTAATCAGTGCAGTA
1 GTAATCAGTGTAGTA
57112727 TGCAAGCAGA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 2 0.08
18 24 0.92
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (19 bp):
GTAATCAGTGTAGTAACCA
Found at i:57113121 original size:27 final size:27
Alignment explanation
Indices: 57113063--57113178 Score: 81
Period size: 27 Copynumber: 4.3 Consensus size: 27
57113053 GAACAAATCT
* ** **
57113063 GTCATTTTACCTTACCGGGGTATTAAA
1 GTCATTTTACCCTACAAGGGTATTTCA
*
57113090 ATCATTTTACCCTACAAGGGTATTTCA
1 GTCATTTTACCCTACAAGGGTATTTCA
* *** * *
57113117 GTCATTCTA-CCTTGTAGGGCATTTCG
1 GTCATTTTACCCTACAAGGGTATTTCA
** * *
57113143 GTCATTTTACCCTATGAGTGTATTTCG
1 GTCATTTTACCCTACAAGGGTATTTCA
57113170 GTCATTTTA
1 GTCATTTTA
57113179 TCACATAAGG
Statistics
Matches: 69, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
26 20 0.29
27 49 0.71
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGTATTTCA
Found at i:57113200 original size:27 final size:27
Alignment explanation
Indices: 57113170--57113510 Score: 454
Period size: 27 Copynumber: 12.7 Consensus size: 27
57113160 GTGTATTTCG
* *
57113170 GTCATTTTATCACATAAGGGCCAAATC
1 GTCATTTTATCACATGAGGGCAAAATC
* * *
57113197 GTCATTTTATCACATAAGGGCCAAATT
1 GTCATTTTATCACATGAGGGCAAAATC
* *
57113224 TTCATTTTAACACATGAGGGCAAAATC
1 GTCATTTTATCACATGAGGGCAAAATC
* *
57113251 GCCATTTTATCACATG-GGGAAAAATC
1 GTCATTTTATCACATGAGGGCAAAATC
* * *
57113277 GTCATTTTATCACATAAAGGTAAAATC
1 GTCATTTTATCACATGAGGGCAAAATC
* * *
57113304 ATCATTTTATCAC--GAGGGAAAAATA
1 GTCATTTTATCACATGAGGGCAAAATC
* *
57113329 GTCATTTTATCATATGAGGGAAAAATC
1 GTCATTTTATCACATGAGGGCAAAATC
*
57113356 GTCATTTTATCACATGAGGGCAAAATA
1 GTCATTTTATCACATGAGGGCAAAATC
*
57113383 GTCATTTTATCACATGAGGGCAAAATA
1 GTCATTTTATCACATGAGGGCAAAATC
*
57113410 GTCATTTTATCATATGAGGGCAAAATC
1 GTCATTTTATCACATGAGGGCAAAATC
57113437 GTCATTTTATCACATGAGGGCAAAATC
1 GTCATTTTATCACATGAGGGCAAAATC
*
57113464 GTCATTTTATCACATGAGGGAAAAATC
1 GTCATTTTATCACATGAGGGCAAAATC
* *
57113491 TTCATTTTATCAAATGAGGG
1 GTCATTTTATCACATGAGGG
57113511 TTCAAGTACG
Statistics
Matches: 280, Mismatches: 31, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
25 19 0.07
26 23 0.08
27 238 0.85
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (27 bp):
GTCATTTTATCACATGAGGGCAAAATC
Found at i:57121210 original size:40 final size:41
Alignment explanation
Indices: 57121155--57121255 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 41
57121145 AAAACTATCT
57121155 CAATATTGCACACTTAGTGCCACATATAGCCGAAGCTA-TTC
1 CAAT-TTGCACACTTAGTGCCACATATAGCCGAAGCTATTTC
* ** *
57121196 CAATTTGCACACTTAGTGCTATTTATAGTCGAAGCTATTTC
1 CAATTTGCACACTTAGTGCCACATATAGCCGAAGCTATTTC
* *
57121237 AAATCT-CACACTTAGTGCC
1 CAATTTGCACACTTAGTGCC
57121256 GAACATAGTC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 41 0.79
41 11 0.21
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (41 bp):
CAATTTGCACACTTAGTGCCACATATAGCCGAAGCTATTTC
Found at i:57123747 original size:27 final size:27
Alignment explanation
Indices: 57123715--57123776 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
57123705 TAGTGTAGCC
57123715 AAATTACCGAAATACCCCTGTAGGGTA
1 AAATTACCGAAATACCCCTGTAGGGTA
* * * *
57123742 GAATTACCGAGATACCCTTGTGGGGTA
1 AAATTACCGAAATACCCCTGTAGGGTA
57123769 AAATTACC
1 AAATTACC
57123777 ATTTTTCCCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
AAATTACCGAAATACCCCTGTAGGGTA
Found at i:57124085 original size:24 final size:25
Alignment explanation
Indices: 57123978--57124072 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
57123968 AGGAAGTGCT
* * * *
57123978 AAAAGGGCTATGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
57124003 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
57124028 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
57124053 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
57124073 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:57129902 original size:30 final size:29
Alignment explanation
Indices: 57129846--57129909 Score: 92
Period size: 30 Copynumber: 2.2 Consensus size: 29
57129836 ATGAATCGAA
***
57129846 AGCTTTGGCACTAAGTGTGTGGTTTAAACT
1 AGCTTTGGCACTAAGTGTGCAATTT-AACT
57129876 AGCTTTGGCACTAAGTGTGCAATTTAACT
1 AGCTTTGGCACTAAGTGTGCAATTTAACT
57129905 AGCTT
1 AGCTT
57129910 CGGCTACTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCAATTTAACT
Found at i:57131897 original size:29 final size:29
Alignment explanation
Indices: 57131840--57131921 Score: 121
Period size: 29 Copynumber: 2.9 Consensus size: 29
57131830 CCTGTATATT
* *
57131840 GCCCACTAGGCCC-AATCACATTTATATG
1 GCCCATTAGGCCCAAATCACATTTACATG
57131868 GCCCATTAGGCCCAAATCACATTTACATG
1 GCCCATTAGGCCCAAATCACATTTACATG
* *
57131897 GCCCATCAGGCCCAATTCACATTTA
1 GCCCATTAGGCCCAAATCACATTTA
57131922 TAGTCATGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 12 0.24
29 37 0.76
ACGTcount: A:0.29, C:0.33, G:0.13, T:0.24
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATCACATTTACATG
Found at i:57132928 original size:4 final size:4
Alignment explanation
Indices: 57132919--57132944 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
57132909 ATTTATACTA
57132919 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
57132945 TACACCTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:57135784 original size:17 final size:17
Alignment explanation
Indices: 57135762--57135811 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
57135752 ATTCATAAGC
57135762 AAATAAACAAATTAATA
1 AAATAAACAAATTAATA
* * *
57135779 AAATAATCAAATCATTA
1 AAATAAACAAATTAATA
57135796 AAATTAAACCAAATTA
1 AAA-TAAA-CAAATTA
57135812 TACTATCATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 17 0.65
18 3 0.12
19 6 0.23
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATAAACAAATTAATA
Found at i:57145199 original size:50 final size:50
Alignment explanation
Indices: 57145123--57145298 Score: 239
Period size: 49 Copynumber: 3.5 Consensus size: 50
57145113 CCATGGCAAC
*
57145123 AAGTGATAAGTGATAGCTTCGACTACACTTATTTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGACAAATGA
* * *
57145173 AAGTGATAAGTAATTGCTTCGGCTACA-TTATCTT-ATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTAT-TTGATCAAGGACAAATGA
* *
57145222 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGACAAATGA
* * *
57145272 CAAGTGAAAAGTGGTAGCTTCTGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
57145299 CTGATTAGTG
Statistics
Matches: 110, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
49 44 0.40
50 43 0.39
51 23 0.21
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.28
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGACAAATGA
Found at i:57145229 original size:49 final size:50
Alignment explanation
Indices: 57145123--57145298 Score: 239
Period size: 50 Copynumber: 3.5 Consensus size: 50
57145113 CCATGGCAAC
*
57145123 AAGTGATAAGTGATAGCTTCGACTACACTTAT-TTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTT-ATCAAGGACAAATGA
* * *
57145173 AAGTGATAAGTAATTGCTTCGGCTACA-TTATCTTATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTTATCAAGGACAAATGA
* *
57145222 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTTATCAAGGACAAATGA
* * *
57145272 CAAGTGAAAAGTGGTAGCTTCTGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
57145299 CTGATTAGTG
Statistics
Matches: 111, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
49 43 0.39
50 45 0.41
51 23 0.21
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.28
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTTATCAAGGACAAATGA
Found at i:57145312 original size:31 final size:31
Alignment explanation
Indices: 57145274--57145391 Score: 182
Period size: 31 Copynumber: 3.8 Consensus size: 31
57145264 ACAAATGACA
*
57145274 AGTGAAAAGTGGTAGCTTCTGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATT
*
57145305 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATT
* *
57145336 AGTGAAAAATGGTAGCTCCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATT
* *
57145367 AGTGAATAGTGGTAGCTTCAGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
57145392 ATGTGACAAG
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 78 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATT
Found at i:57145525 original size:44 final size:43
Alignment explanation
Indices: 57145460--57145612 Score: 145
Period size: 42 Copynumber: 3.6 Consensus size: 43
57145450 TGCTACTGTA
* * * *
57145460 TAAGACCATATCTGGGATATGGAATTAG-TGAGATGTGAT-TCGTG
1 TAAGACCATAGCTGGGCTATGGCATTAGAT-AGATG-AATAT-GTG
* *
57145504 TAAGACCATAGCTGGGCTATGGCA-TCGATATATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATTAGATAGATGAATATGTG
* *
57145546 TAAGACCATAGCTGGGCTATGGCATTA-TTATG-TGAAGATGTG
1 TAAGACCATAGCTGGGCTATGGCATTAGATA-GATGAATATGTG
**
57145588 TAAGACCATAGCTGAACTATGGCAT
1 TAAGACCATAGCTGGGCTATGGCAT
57145613 CGAGAAAACG
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
42 63 0.68
43 8 0.09
44 22 0.24
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (43 bp):
TAAGACCATAGCTGGGCTATGGCATTAGATAGATGAATATGTG
Found at i:57145557 original size:42 final size:43
Alignment explanation
Indices: 57145501--57145615 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
57145491 GATGTGATTC
*
57145501 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* *
57145543 GTGTAAGACCATAGCTGGGCTATGGCAT-TATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
**
57145585 GTGTAAGACCATAGCTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
57145616 GAAAACGAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
41 1 0.02
42 63 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:57145561 original size:86 final size:84
Alignment explanation
Indices: 57145460--57145615 Score: 199
Period size: 84 Copynumber: 1.8 Consensus size: 84
57145450 TGCTACTGTA
* * **
57145460 TAAGACCATATCTGGGATATGGAATTAGTGAGATGTG-A-TTCGTGTAAGACCATAGCTGGGCTA
1 TAAGACCATAGCTGGGATATGGAATTA-T--GATGTGAAGAT-GTGTAAGACCATAGCTGAACTA
57145523 TGGCATCGATATATGAATATGTG
62 TGGCATCGATATATGAATATGTG
* * *
57145546 TAAGACCATAGCTGGGCTATGGCATTATTATGTGAAGATGTGTAAGACCATAGCTGAACTATGGC
1 TAAGACCATAGCTGGGATATGGAATTATGATGTGAAGATGTGTAAGACCATAGCTGAACTATGGC
57145611 ATCGA
66 ATCGA
57145616 GAAAACGAAG
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
83 5 0.08
84 30 0.49
85 2 0.03
86 24 0.39
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (84 bp):
TAAGACCATAGCTGGGATATGGAATTATGATGTGAAGATGTGTAAGACCATAGCTGAACTATGGC
ATCGATATATGAATATGTG
Found at i:57145742 original size:42 final size:43
Alignment explanation
Indices: 57145696--57145810 Score: 180
Period size: 42 Copynumber: 2.7 Consensus size: 43
57145686 ATGTGATTAC
*
57145696 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
57145738 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
**
57145780 GTGTAAGACCATAGCTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
57145811 GAAAACGAAG
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
41 1 0.01
42 65 0.97
43 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:57145832 original size:195 final size:194
Alignment explanation
Indices: 57145492--57145869 Score: 738
Period size: 195 Copynumber: 1.9 Consensus size: 194
57145482 AATTAGTGAG
57145492 ATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTGTAAGACCATAG
1 ATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTGTAAGACCATAG
*
57145557 CTGGGCTATGGCATTATTATGTGAAGATGTGTAAGACCATAGCTGAACTATGGCATCGAGAAAAC
66 CTGGGCTATGGCATCATTATGTGAAGATGTGTAAGACCATAGCTGAACTATGGCATCGAGAAAAC
57145622 GAAGTATTCAAATCTGTAAGACATTCACTAATTTGACAAATTCTGGTAAGTGTCGATATATGAT
131 GAAGTATTCAAATCTGTAAGACATTCACTAATTTGACAAATTCTGGTAAGTGTCGATATATGAT
57145686 ATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTGTAAGACCATA
1 ATGTGATT-CGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTGTAAGACCATA
57145751 GCTGGGCTATGGCATCATTATGTGAAGATGTGTAAGACCATAGCTGAACTATGGCATCGAGAAAA
65 GCTGGGCTATGGCATCATTATGTGAAGATGTGTAAGACCATAGCTGAACTATGGCATCGAGAAAA
57145816 CGAAGTATTCAAATCTGTAAGACATTCACTAATTTGACAAATTCTGGTAAGTGT
130 CGAAGTATTCAAATCTGTAAGACATTCACTAATTTGACAAATTCTGGTAAGTGT
57145870 TACATGGAAT
Statistics
Matches: 182, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
194 8 0.04
195 174 0.96
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.29
Consensus pattern (194 bp):
ATGTGATTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGAATATGTGTAAGACCATAG
CTGGGCTATGGCATCATTATGTGAAGATGTGTAAGACCATAGCTGAACTATGGCATCGAGAAAAC
GAAGTATTCAAATCTGTAAGACATTCACTAATTTGACAAATTCTGGTAAGTGTCGATATATGAT
Found at i:57148756 original size:28 final size:29
Alignment explanation
Indices: 57148713--57148827 Score: 119
Period size: 29 Copynumber: 4.0 Consensus size: 29
57148703 TACCTGTATC
** *
57148713 TGGCCCATTAAACCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
57148741 TGGCCCATTAGGCCCAAATCACCTAT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* * *
57148770 TGGTCCAATAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
57148799 TGGCTCGTTAGGCCC-AATCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
57148827 T
1 T
57148828 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
28 27 0.38
29 44 0.61
30 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:57149064 original size:16 final size:16
Alignment explanation
Indices: 57149045--57149075 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57149035 AACTTTCAGC
57149045 TTTTCGGCATTTCAAT
1 TTTTCGGCATTTCAAT
*
57149061 TTTTCGGTATTTCAA
1 TTTTCGGCATTTCAA
57149076 AATTTTGGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.16, G:0.13, T:0.52
Consensus pattern (16 bp):
TTTTCGGCATTTCAAT
Found at i:57150339 original size:16 final size:16
Alignment explanation
Indices: 57150318--57150349 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
57150308 AAATTCAAGA
57150318 TTTTGGGACTTTTGGG
1 TTTTGGGACTTTTGGG
*
57150334 TTTTGGGATTTTTGGG
1 TTTTGGGACTTTTGGG
57150350 GAGTTACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.03, G:0.38, T:0.53
Consensus pattern (16 bp):
TTTTGGGACTTTTGGG
Found at i:57156475 original size:29 final size:29
Alignment explanation
Indices: 57156377--57156491 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 29
57156367 TAACTGTATC
* * * *
57156377 TGGCCCATTAAGCCC-AATCATAATCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* * *
57156405 TGGCCCATTAGGACCAAATCACCTGTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
*
57156434 TGGTCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* * *
57156463 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
57156491 T
1 T
57156492 TCATTCTCAC
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
28 25 0.35
29 46 0.65
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:57172365 original size:29 final size:29
Alignment explanation
Indices: 57172333--57172401 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
57172323 TTGGCCTGGG
*
57172333 GCCATGCATATTGAATATGTTGGCTTCGC
1 GCCATGCATATTGAATATGTTGGCTTCGA
* * *
57172362 GCCATGCATATCGCATGTGTTGGCTTCGA
1 GCCATGCATATTGAATATGTTGGCTTCGA
57172391 GCCATG-ATATT
1 GCCATGCATATT
57172402 AGCACTTTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 4 0.11
29 31 0.89
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (29 bp):
GCCATGCATATTGAATATGTTGGCTTCGA
Found at i:57177395 original size:47 final size:47
Alignment explanation
Indices: 57177328--57177459 Score: 239
Period size: 47 Copynumber: 2.8 Consensus size: 47
57177318 GTTGAATTTA
* *
57177328 AAGCTTGTTCAA-TTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTT
57177374 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTT
57177421 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTT
57177460 TGTAACATCC
Statistics
Matches: 83, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
46 11 0.13
47 72 0.87
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTCCGGACAAGTTACTTAGTT
Found at i:57187543 original size:47 final size:46
Alignment explanation
Indices: 57187457--57187598 Score: 205
Period size: 47 Copynumber: 3.0 Consensus size: 46
57187447 GTTGAATTTA
57187457 AAGCTTGTTAAA-TTGCTCTTAATATTTCTGGATCAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCTGGA-CAGTTACTTAGTT
* *
57187503 AAGCTTGTTAAATTTTCTCTTAATATTTCCGGACAGGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCTGGACA-GTTACTTAGTT
* * *
57187550 AAGCTTGTTAAATTTGCCCTTAATATTTGTGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCTGGA-CAGTTACTTAGTT
57187597 AA
1 AA
57187599 AGAAAATTTT
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
46 14 0.16
47 71 0.83
48 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.44
Consensus pattern (46 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTCTGGACAGTTACTTAGTT
Found at i:57192899 original size:31 final size:31
Alignment explanation
Indices: 57192859--57192941 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
57192849 TCAGTCTCGA
* *
57192859 CATA-TACTGGGCCGGAGCCTTTTCATAAAT
1 CATATTACTGGGCCGAAGCCTTTTCACAAAT
57192889 CATATTACTGGGCCGAAGCCTTTTCACAAAT
1 CATATTACTGGGCCGAAGCCTTTTCACAAAT
*
57192920 CATATCACT-GGCCGAAGCCTTT
1 CATATTACTGGGCCGAAGCCTTT
57192942 ACTGTAAGCG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 17 0.35
31 32 0.65
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (31 bp):
CATATTACTGGGCCGAAGCCTTTTCACAAAT
Found at i:57193199 original size:25 final size:25
Alignment explanation
Indices: 57193167--57193230 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
57193157 TTAATAACGG
*
57193167 GGCAAAGCCCTTTTTGATAAACTGC
1 GGCAAAGCCCTTTTCGATAAACTGC
* *
57193192 GGCAAAGCCCTTTTCGGTAAACTGG
1 GGCAAAGCCCTTTTCGATAAACTGC
*
57193217 GGCATAGCCCTTTT
1 GGCAAAGCCCTTTT
57193231 AGCACTTCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (25 bp):
GGCAAAGCCCTTTTCGATAAACTGC
Found at i:57193482 original size:27 final size:27
Alignment explanation
Indices: 57193433--57193676 Score: 299
Period size: 27 Copynumber: 9.0 Consensus size: 27
57193423 GGGGCAAAAT
* * * *
57193433 GGTAATTTTTACCCCACAAGGGTATCTC
1 GGTAA-TTCTACCCTACAGGGGTATTTC
**
57193461 GGTAATTCTACCCTATTGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
57193488 GGTATTTTTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
57193515 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
57193542 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
57193569 GGTAATTCTACCCTATAGGGTTGTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
57193596 AGTAATTCTACCCAACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
57193623 GGTAATTCTACTCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
57193650 GATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
57193677 AATATTTTAC
Statistics
Matches: 182, Mismatches: 34, Indels: 1
0.84 0.16 0.00
Matches are distributed among these distances:
27 177 0.97
28 5 0.03
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:57193725 original size:26 final size:26
Alignment explanation
Indices: 57193668--57193727 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
57193658 TACCTTACAG
*
57193668 GGGTATTTCAATATTTTACAAATCGA
1 GGGTATTTCAATATTTCACAAATCGA
* *
57193694 GAGTATTTCGATAATTTCACAAATC-A
1 GGGTATTTCAAT-ATTTCACAAATCGA
57193720 GGGTATTT
1 GGGTATTT
57193728 TGGTAATCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 18 0.62
27 11 0.38
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (26 bp):
GGGTATTTCAATATTTCACAAATCGA
Found at i:57193734 original size:26 final size:27
Alignment explanation
Indices: 57193680--57193886 Score: 123
Period size: 27 Copynumber: 7.7 Consensus size: 27
57193670 GTATTTCAAT
* * *
57193680 ATTTTACAAATCGAGAGTATTTCGATA
1 ATTTTACAAATCGAGGGTATTTTGGTA
*
57193707 ATTTCACAAATC-AGGGTATTTTGGTA
1 ATTTTACAAATCGAGGGTATTTTGGTA
* * *
57193733 ATCTTAC-AAGCCAGGGCTATTTTGGTA
1 ATTTTACAAATCGAGGG-TATTTTGGTA
***
57193760 ATTTTATTGATCGAGGGTATTTTGGTA
1 ATTTTACAAATCGAGGGTATTTTGGTA
** * * * *
57193787 ATTTTGTAAACCAAGGGTATTGTAGTA
1 ATTTTACAAATCGAGGGTATTTTGGTA
** ***
57193814 ATTTTGTAAATCGAGGGTAAAATGGTA
1 ATTTTACAAATCGAGGGTATTTTGGTA
* *** *
57193841 ATTCT-CTAAATCGAGGGTAAAATGATA
1 ATTTTAC-AAATCGAGGGTATTTTGGTA
* *
57193868 ATTCTATAAATCGAGGGTA
1 ATTTTACAAATCGAGGGTA
57193887 AAACAGTAAT
Statistics
Matches: 146, Mismatches: 29, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
25 3 0.02
26 20 0.14
27 117 0.80
28 6 0.04
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (27 bp):
ATTTTACAAATCGAGGGTATTTTGGTA
Found at i:57193840 original size:54 final size:52
Alignment explanation
Indices: 57193782--57193940 Score: 147
Period size: 54 Copynumber: 2.9 Consensus size: 52
57193772 GAGGGTATTT
* * * * * *
57193782 TGGTAATTTTGTAAACCAAGGGTATTGTAGTAATTTTGTAAATCGAGGGTAAAA
1 TGGTAATTCTATAAATCAAGGGTAATG-A-TAATTCTATAAATCGAGGGTAAAA
* *
57193836 TGGTAATTCTCTAAATCGAGGGTAAAATGATAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTATAAATCAAGGGT--AATGATAATTCTATAAATCGAGGGTAAAA
** ** *
57193890 CAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAAATCGATGGTA
1 TGGTAATTCTATAAATCAAGGGT-AATGA-TAATTCTATAAATCGAGGGTA
57193941 CTTTGGTAAT
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
53 4 0.05
54 80 0.91
55 1 0.01
56 3 0.03
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (52 bp):
TGGTAATTCTATAAATCAAGGGTAATGATAATTCTATAAATCGAGGGTAAAA
Found at i:57193841 original size:27 final size:27
Alignment explanation
Indices: 57193811--57193940 Score: 170
Period size: 27 Copynumber: 4.8 Consensus size: 27
57193801 GGGTATTGTA
* *
57193811 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
57193838 GTAATTCTCTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* **
57193865 ATAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAATG
* **
57193892 GTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAATG
*
57193919 GTAATTCTATAAATCGATGGTA
1 GTAATTCTATAAATCGAGGGTA
57193941 CTTTGGTAAT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:57193854 original size:81 final size:81
Alignment explanation
Indices: 57193769--57193954 Score: 192
Period size: 81 Copynumber: 2.3 Consensus size: 81
57193759 AATTTTATTG
* * **** * * *
57193769 ATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTGTAGTAATTTTGTAAATCGAGGGTAA
1 ATCGAGGGTAATTTGGTAATTTTATAAACCAAGGGTAAAACAGTAATTCTATAAATCAAGGGTAA
** *
57193834 AATGGTAATTCTCTAA
66 AACAGTAATTCTATAA
** * * * *
57193850 ATCGAGGGTAAAATGATAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAA
1 ATCGAGGGTAATTTGGTAATTTTATAAACCAAGGGTAAAACAGTAATTCTATAAATCAAGGGTAA
57193915 AACAGTAATTCTATAA
66 AACAGTAATTCTATAA
* *
57193931 ATCGATGGTACTTTGGTAATTTTA
1 ATCGAGGGTAATTTGGTAATTTTA
57193955 CAAGTCGAGG
Statistics
Matches: 81, Mismatches: 24, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (81 bp):
ATCGAGGGTAATTTGGTAATTTTATAAACCAAGGGTAAAACAGTAATTCTATAAATCAAGGGTAA
AACAGTAATTCTATAA
Found at i:57196692 original size:44 final size:44
Alignment explanation
Indices: 57196644--57196746 Score: 170
Period size: 44 Copynumber: 2.3 Consensus size: 44
57196634 ATTGAGATGG
*
57196644 CACTAAGTGTGCAAGATCGTAACAGCTTTGGCTAATCATTAATA
1 CACTAAGTGTGCAAGATCGTAACAGCTTTGACTAATCATTAATA
* * *
57196688 CACTAAGTGTGCGAGATCGTAACAGCTTTGACTAATGATTAATG
1 CACTAAGTGTGCAAGATCGTAACAGCTTTGACTAATCATTAATA
57196732 CACTAAGTGTGCAAG
1 CACTAAGTGTGCAAG
57196747 CTCTTAAAGT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (44 bp):
CACTAAGTGTGCAAGATCGTAACAGCTTTGACTAATCATTAATA
Found at i:57198498 original size:58 final size:58
Alignment explanation
Indices: 57198408--57198517 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
57198398 AAACCCTATA
* *
57198408 TGTAACACCCCTAACCCGTATCCATCGTCGAAATAGGGTTACTG-AGTATTACCAAAGT
1 TGTAACACCCCTAACCCGTATCAATCGCCGAAATAGGGTTA-TGAAGTATTACCAAAGT
* *
57198466 TGTAACACCCCTCACTCGTATTCAAT-GCCGAAATAGGGTTATGAAGTATTAC
1 TGTAACACCCCTAACCCGTA-TCAATCGCCGAAATAGGGTTATGAAGTATTAC
57198518 TAGACTCACA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
57 2 0.04
58 40 0.87
59 4 0.09
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (58 bp):
TGTAACACCCCTAACCCGTATCAATCGCCGAAATAGGGTTATGAAGTATTACCAAAGT
Found at i:57200538 original size:40 final size:39
Alignment explanation
Indices: 57200455--57200568 Score: 106
Period size: 40 Copynumber: 2.8 Consensus size: 39
57200445 ATGATCTCGT
* **
57200455 ACACTTAGTGCCATCACATTAAACCGAAGCTATATCGTATCAC
1 ACACTTAGTGCC-TCATA-T-AACCGAAGCTAT-TCCAATCAC
57200498 ACACTTAGTGCCTCATATAACCGAAGCTATTCCAATTCAC
1 ACACTTAGTGCCTCATATAACCGAAGCTATTCCAA-TCAC
* *
57200538 ACACTAAGTG--TTATATATAGCCGAAGCTATT
1 ACACTTAGTGCCTCATATA-A-CCGAAGCTATT
57200569 TTGAAACACA
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
38 6 0.10
39 4 0.06
40 36 0.57
41 1 0.02
42 4 0.06
43 12 0.19
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.28
Consensus pattern (39 bp):
ACACTTAGTGCCTCATATAACCGAAGCTATTCCAATCAC
Found at i:57209093 original size:27 final size:27
Alignment explanation
Indices: 57209029--57209109 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
57209019 AGCATGGCTG
* * *
57209029 CCAGAACT-GATATTGTGACAGAGTCA
1 CCAGAATTAGATATTGTGGCAGAGCCA
* *
57209055 CCAG-ATACAGATATTGGGGCAGAGCCA
1 CCAGAAT-TAGATATTGTGGCAGAGCCA
* *
57209082 CCAGAATTAGATAATGTGGCAAAGCCA
1 CCAGAATTAGATATTGTGGCAGAGCCA
57209109 C
1 C
57209110 TTAACAGAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
25 1 0.02
26 4 0.09
27 36 0.84
28 2 0.05
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CCAGAATTAGATATTGTGGCAGAGCCA
Found at i:57209332 original size:97 final size:98
Alignment explanation
Indices: 57209133--57209368 Score: 357
Period size: 97 Copynumber: 2.4 Consensus size: 98
57209123 TGGCACAAAG
* * * *
57209133 CCATCGATAACGAGTCTATAATCGGCACGAAGCCCACAATATCTATACGAAGGCCACAATAACGA
1 CCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATATCTATACGAAGCCCACAATAACGA
*
57209198 CACACAACCTTCGGTAACATGATCGACACTCAG
66 CACACAACCTTCGGTAACATGATCGACACTCAA
* *
57209231 CCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATATC-ATACGAAGCCCACAATAATGG
1 CCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATATCTATACGAAGCCCACAATAACGA
* * * *
57209295 CGCACAGCCTTCGGTAACATGATTGGCACTCAA
66 CACACAACCTTCGGTAACATGATCGACACTCAA
*
57209328 CCATTGATAACGGGTCTATAATCGGCACCAAGCCTACAATA
1 CCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATA
57209369 ACGGCACACA
Statistics
Matches: 126, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
97 86 0.68
98 40 0.32
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.19
Consensus pattern (98 bp):
CCATTGATAACGGGTCTATAATCGGCACGAAGCCTACAATATCTATACGAAGCCCACAATAACGA
CACACAACCTTCGGTAACATGATCGACACTCAA
Found at i:57209472 original size:27 final size:26
Alignment explanation
Indices: 57209419--57209500 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 26
57209409 TTGATCAGTC
* *
57209419 AACAAATATTGTGACAAAGTCACCAG
1 AACAAATATTGTGGCAAAGCCACCAG
* * *
57209445 ATACAGATATTGTGGCAGAGCCATCAG
1 A-ACAAATATTGTGGCAAAGCCACCAG
*
57209472 AACAAATACTTGTGGCATAGCCACCAG
1 AACAAATA-TTGTGGCAAAGCCACCAG
57209499 AA
1 AA
57209501 TGCTTCCTCC
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
26 7 0.15
27 39 0.85
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.20
Consensus pattern (26 bp):
AACAAATATTGTGGCAAAGCCACCAG
Found at i:57209721 original size:27 final size:27
Alignment explanation
Indices: 57209689--57209777 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
57209679 TTGCCCACAA
57209689 GGGCAAAACAGTCATTTAACACCATAG
1 GGGCAAAACAGTCATTTAACACCATAG
** * * * * *
57209716 GGGCAAAATGGTAATTTTACCCCACAA
1 GGGCAAAACAGTCATTTAACACCATAG
*
57209743 GGGCAAAACAGTCATTTAACACCCTAG
1 GGGCAAAACAGTCATTTAACACCATAG
57209770 GGGCAAAA
1 GGGCAAAA
57209778 TGGTAATTTT
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.18
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTAACACCATAG
Found at i:57209764 original size:54 final size:54
Alignment explanation
Indices: 57209682--57209799 Score: 227
Period size: 54 Copynumber: 2.2 Consensus size: 54
57209672 CAGTCACTTG
57209682 CCCACAAGGGCAAAACAGTCATTTAACACCATAGGGGCAAAATGGTAATTTTAC
1 CCCACAAGGGCAAAACAGTCATTTAACACCATAGGGGCAAAATGGTAATTTTAC
*
57209736 CCCACAAGGGCAAAACAGTCATTTAACACCCTAGGGGCAAAATGGTAATTTTAC
1 CCCACAAGGGCAAAACAGTCATTTAACACCATAGGGGCAAAATGGTAATTTTAC
57209790 CCCACAAGGG
1 CCCACAAGGG
57209800 TATCTCGGTA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (54 bp):
CCCACAAGGGCAAAACAGTCATTTAACACCATAGGGGCAAAATGGTAATTTTAC
Found at i:57209786 original size:27 final size:27
Alignment explanation
Indices: 57209702--57209786 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
57209692 CAAAACAGTC
*
57209702 ATTTAACACCATAGGGGCAAAATGGTA
1 ATTTAACACCCTAGGGGCAAAATGGTA
* * * ** *
57209729 ATTTTAC-CCCACAAGGGCAAAACAGTC
1 ATTTAACACCC-TAGGGGCAAAATGGTA
57209756 ATTTAACACCCTAGGGGCAAAATGGTA
1 ATTTAACACCCTAGGGGCAAAATGGTA
57209783 ATTT
1 ATTT
57209787 TACCCCACAA
Statistics
Matches: 43, Mismatches: 13, Indels: 4
0.72 0.22 0.07
Matches are distributed among these distances:
26 2 0.05
27 38 0.88
28 3 0.07
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.24
Consensus pattern (27 bp):
ATTTAACACCCTAGGGGCAAAATGGTA
Found at i:57209809 original size:27 final size:27
Alignment explanation
Indices: 57209779--57210082 Score: 383
Period size: 27 Copynumber: 11.3 Consensus size: 27
57209769 GGGGCAAAAT
* * * *
57209779 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
57209806 GGTAATTCTACCCCACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
57209833 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
57209860 GATAATTCTACCTTAGAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
57209887 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
57209914 GGTAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
57209941 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
57209968 GATAATTCTACCTTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
57209995 AGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
57210022 GGTATTTATACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
57210049 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
57210076 AGTAATT
1 GGTAATT
57210083 TTACAAATCG
Statistics
Matches: 241, Mismatches: 36, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 241 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:57209916 original size:108 final size:108
Alignment explanation
Indices: 57209780--57210109 Score: 448
Period size: 108 Copynumber: 3.1 Consensus size: 108
57209770 GGGCAAAATG
* * * * *
57209780 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCCACAGGGGTATTTCAGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
57209845 CTACAGGGGTATTTCGATAATTCTACCTTAGAGGGGTATTTCA
66 CTACAGGGGTATTTCGATAATTCTACCTTAGAGGGGTATTTCA
* *
57209888 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTAGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
* *
57209953 CTACAGGGGTATTTCGATAATTCTACCTTATAGGGGTATTTTA
66 CTACAGGGGTATTTCGATAATTCTACCTTAGAGGGGTATTTCA
* * * * * *
57209996 GTAATTCTACCCTATAGGGGTATTTTGGTATTTATACCCTACAAGGGTATTTCGGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
* * ** *
57210061 CTACAAGGGTATTTC-AGTAATTTTACAAATCGA-GGGTATTTCA
66 CTACAGGGGTATTTCGA-TAATTCTAC-CTTAGAGGGGTATTTCA
57210104 GTAATT
1 GTAATT
57210110 TTGCAAACTG
Statistics
Matches: 196, Mismatches: 24, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
107 1 0.01
108 193 0.98
109 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (108 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACC
CTACAGGGGTATTTCGATAATTCTACCTTAGAGGGGTATTTCA
Found at i:57210096 original size:27 final size:27
Alignment explanation
Indices: 57210066--57210245 Score: 181
Period size: 27 Copynumber: 6.7 Consensus size: 27
57210056 CTACCCTACA
57210066 AGGGTATTTCAGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
*
57210093 AGGGTATTTCAGTAATTTTGCAAA-CTG
1 AGGGTATTTCAGTAATTTTACAAATC-G
**
57210120 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCAGTAATTTTACAAATCG
* *
57210147 AAGGTATTTCAGTAATTTTAC-AATTG
1 AGGGTATTTCAGTAATTTTACAAATCG
** * *
57210173 ACAGTATTTC-GATAATTTTATAAACCG
1 AGGGTATTTCAG-TAATTTTACAAATCG
* * *
57210200 GGGGTACTTT-GGTAATTTTACAACT-G
1 AGGGTA-TTTCAGTAATTTTACAAATCG
*
57210226 GGGGTATTTCAGTAATTTTA
1 AGGGTATTTCAGTAATTTTA
57210246 GTAAACTAAA
Statistics
Matches: 126, Mismatches: 20, Indels: 15
0.78 0.12 0.09
Matches are distributed among these distances:
25 4 0.03
26 37 0.29
27 80 0.63
28 5 0.04
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTCAGTAATTTTACAAATCG
Found at i:57210097 original size:54 final size:53
Alignment explanation
Indices: 57209780--57210163 Score: 337
Period size: 54 Copynumber: 7.1 Consensus size: 53
57209770 GGGCAAAATG
* * * *
57209780 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCCA-C-AGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA--CCATCGA-GGGTATTTCA
* * *
57209834 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCTTAGAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCATCGA-GGGTATTTCA
* *
57209888 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTAC-AGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCAT-CGA-GGGTATTTCA
* * *
57209942 GTAATTCTACCCTACAGGGGTATTTCGATAATTCTACCTTATAG-GGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACC--ATCGAGGGTATTTCA
* * * * * * *
57209996 GTAATTCTACCCTATAGGGGTATTTTGGTATTTATACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCAT-CGAGGGTATTTCA
* * * *
57210050 GTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC-CATCGAGGGTATTTCA
** ** * * * * *
57210104 GTAATT-TTGCAAACTGAGGGTATTTTGGTAATTTTACAAATCGAAGGTATTTCA
1 GTAATTCTACCCTACAG-GGGTATTTCGGTAATTCTAC-CATCGAGGGTATTTCA
57210158 GTAATT
1 GTAATT
57210164 TTACAATTGA
Statistics
Matches: 278, Mismatches: 42, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
52 3 0.01
53 4 0.01
54 269 0.97
55 1 0.00
56 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (53 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCATCGAGGGTATTTCA
Found at i:57210233 original size:53 final size:53
Alignment explanation
Indices: 57210066--57210245 Score: 202
Period size: 53 Copynumber: 3.4 Consensus size: 53
57210056 CTACCCTACA
* *
57210066 AGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTGCAAACTG
1 AGGGTATTTCAGTAATTTTACAAACCGAGGGTATTTCAGTAATTTTAC-AACTG
** * * *
57210120 AGGGTATTTTGGTAATTTTACAAATCGAAGGTATTTCAGTAATTTTACAATTG
1 AGGGTATTTCAGTAATTTTACAAACCGAGGGTATTTCAGTAATTTTACAACTG
** * * *
57210173 ACAGTATTTC-GATAATTTTATAAACCGGGGGTACTTT-GGTAATTTTACAACTG
1 AGGGTATTTCAG-TAATTTTACAAACCGAGGGTA-TTTCAGTAATTTTACAACTG
*
57210226 GGGGTATTTCAGTAATTTTA
1 AGGGTATTTCAGTAATTTTA
57210246 GTAAACTAAA
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 1 0.01
53 57 0.54
54 48 0.45
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (53 bp):
AGGGTATTTCAGTAATTTTACAAACCGAGGGTATTTCAGTAATTTTACAACTG
Found at i:57233238 original size:39 final size:39
Alignment explanation
Indices: 57233195--57233322 Score: 175
Period size: 39 Copynumber: 3.3 Consensus size: 39
57233185 GGTCTTTAAC
* *
57233195 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCACATAGCCTGCGGACCTCATGT
* * * *
57233234 CCGGATATATTTCTAGCATATAGCCTGCAGACCTCATGT
1 CCGGATATTTTTCCAGCACATAGCCTGCGGACCTCATGT
**
57233273 CCGGATATTTTTCCAGCACATAATCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCACATAGCCTGCGGACCTCATGT
*
57233312 CTGGATATTTT
1 CCGGATATTTT
57233323 CAATCTCATA
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCACATAGCCTGCGGACCTCATGT
Found at i:57252611 original size:20 final size:20
Alignment explanation
Indices: 57252588--57252641 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
57252578 AGTTTTTCCC
*
57252588 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
57252608 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
57252628 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
57252642 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:57252623 original size:30 final size:30
Alignment explanation
Indices: 57252588--57252661 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
57252578 AGTTTTTCCC
57252588 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
57252618 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
57252648 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
57252662 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Done.