Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 195 of 204
Found at i:57597683 original size:16 final size:18
Alignment explanation
Indices: 57597657--57597689 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
57597647 TTGAATTATC
57597657 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
57597674 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
57597690 CTCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:57599697 original size:22 final size:21
Alignment explanation
Indices: 57599665--57599710 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
57599655 TATATCCAAT
* *
57599665 ACCCAAGACCATAAACTCTTAA
1 ACCCAAAACCATAAA-TCCTAA
57599687 ACCCAAAACCATAAATCCTAA
1 ACCCAAAACCATAAATCCTAA
57599708 ACC
1 ACC
57599711 ATAGATCCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.48, C:0.35, G:0.02, T:0.15
Consensus pattern (21 bp):
ACCCAAAACCATAAATCCTAA
Found at i:57603834 original size:25 final size:24
Alignment explanation
Indices: 57603779--57603852 Score: 62
Period size: 25 Copynumber: 3.0 Consensus size: 24
57603769 AATTCTACCC
* *
57603779 TTTAAATCAATATTAAAATTTCAATA
1 TTTAAAT--ATATAAAAATTTAAATA
57603805 TTTAAAATATATAAAAATTTAAAT-
1 TTT-AAATATATAAAAATTTAAATA
* *
57603829 TGTTAAATTTA-AAAAATTTCAATA
1 T-TTAAATATATAAAAATTTAAATA
57603853 ACCTAGAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
23 11 0.27
24 7 0.17
25 16 0.39
26 3 0.07
27 4 0.10
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (24 bp):
TTTAAATATATAAAAATTTAAATA
Found at i:57607333 original size:2 final size:2
Alignment explanation
Indices: 57607326--57607359 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
57607316 TGTGCGTGCA
* *
57607326 TG TG TG TG TG TG TA TG TG TG TG TG TG CG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
57607360 AGAGAGAGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.03, C:0.03, G:0.47, T:0.47
Consensus pattern (2 bp):
TG
Found at i:57607357 original size:14 final size:14
Alignment explanation
Indices: 57607316--57607359 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
57607306 CTGGAGGGGA
*
57607316 TGTGCGTGCATGTG
1 TGTGTGTGCATGTG
*
57607330 TGTGTGTGTATGTG
1 TGTGTGTGCATGTG
*
57607344 TGTGTGTGCGTGTG
1 TGTGTGTGCATGTG
57607358 TG
1 TG
57607360 AGAGAGAGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.05, C:0.07, G:0.45, T:0.43
Consensus pattern (14 bp):
TGTGTGTGCATGTG
Found at i:57615083 original size:21 final size:20
Alignment explanation
Indices: 57615045--57615083 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
57615035 TTTTATTTAA
*
57615045 AATTTTTTCTTTGTTGTTTG
1 AATTTTTTCTTTGGTGTTTG
*
57615065 AATTTCTTTTTTTGGTGTT
1 AATTT-TTTCTTTGGTGTT
57615084 AGATGAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.10, C:0.05, G:0.15, T:0.69
Consensus pattern (20 bp):
AATTTTTTCTTTGGTGTTTG
Found at i:57615976 original size:31 final size:30
Alignment explanation
Indices: 57615903--57615981 Score: 79
Period size: 31 Copynumber: 2.6 Consensus size: 30
57615893 ATGCAATTTG
* *
57615903 ATACATGAAA-TTTGATTTGGTACAATTAT
1 ATACATGAAACTTTGATTTAGTACAAATAT
* * * *
57615932 ACACATAAAACTTTGATTGTAGTTCAAATGT
1 ATACATGAAACTTTGATT-TAGTACAAATAT
*
57615963 ATACATGAAACTTTAATTT
1 ATACATGAAACTTTGATTT
57615982 TGATTCGATC
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
29 8 0.21
30 8 0.21
31 23 0.59
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.39
Consensus pattern (30 bp):
ATACATGAAACTTTGATTTAGTACAAATAT
Found at i:57617341 original size:40 final size:40
Alignment explanation
Indices: 57617286--57617366 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
57617276 CCAGCAACAC
57617286 ATACCATACCAAACAGCATATTGTGTTTCCATGGTAGTCT
1 ATACCATACCAAACAGCATATTGTGTTTCCATGGTAGTCT
57617326 ATACCATACCAAACAGCATATTGTGTTTCCATGGTAGTCT
1 ATACCATACCAAACAGCATATTGTGTTTCCATGGTAGTCT
57617366 A
1 A
57617367 ATAGTCTTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (40 bp):
ATACCATACCAAACAGCATATTGTGTTTCCATGGTAGTCT
Found at i:57620647 original size:38 final size:38
Alignment explanation
Indices: 57620605--57620685 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
57620595 GTAGCCTTTC
57620605 ACTTATAAAAACAAACAAAAAGATACCTTTATTTTCTT
1 ACTTATAAAAACAAACAAAAAGATACCTTTATTTTCTT
*
57620643 ACTTATAAAAACAAACAAAAAGATATCTTTATTTTCTT
1 ACTTATAAAAACAAACAAAAAGATACCTTTATTTTCTT
57620681 ACTTA
1 ACTTA
57620686 ATGCTGCAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (38 bp):
ACTTATAAAAACAAACAAAAAGATACCTTTATTTTCTT
Found at i:57621434 original size:35 final size:35
Alignment explanation
Indices: 57621395--57621466 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
57621385 AGTAATAGAG
57621395 AATGGCAATTGAGAACAGTATAACACCATTTTAAT
1 AATGGCAATTGAGAACAGTATAACACCATTTTAAT
57621430 AATGGCAATTGAGAACAGTATAACACCATTTTAAT
1 AATGGCAATTGAGAACAGTATAACACCATTTTAAT
57621465 AA
1 AA
57621467 ACCCGAGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (35 bp):
AATGGCAATTGAGAACAGTATAACACCATTTTAAT
Found at i:57629000 original size:19 final size:20
Alignment explanation
Indices: 57628973--57629025 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
57628963 AGATGGATTA
57628973 TTATATATTTTTAAAT-TTT
1 TTATATATTTTTAAATATTT
* *
57628992 TTATGTATTTTTATATATTT
1 TTATATATTTTTAAATATTT
*
57629012 TTA-AAATTTTTAAA
1 TTATATATTTTTAAA
57629026 ATTAAGATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 22 0.79
20 6 0.21
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTATATATTTTTAAATATTT
Found at i:57629002 original size:10 final size:10
Alignment explanation
Indices: 57628973--57629023 Score: 61
Period size: 10 Copynumber: 5.3 Consensus size: 10
57628963 AGATGGATTA
57628973 TTATATATTT
1 TTATATATTT
*
57628983 TTAAAT-TTT
1 TTATATATTT
*
57628992 TTATGTATTT
1 TTATATATTT
57629002 TTATATATTT
1 TTATATATTT
*
57629012 TTA-AAATTT
1 TTATATATTT
57629021 TTA
1 TTA
57629024 AAATTAAGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 15 0.43
10 20 0.57
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATATATTT
Found at i:57629021 original size:29 final size:29
Alignment explanation
Indices: 57628955--57629023 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
57628945 GATATTAATA
**
57628955 TAAAATTTAGATGGATTATTATATATTTT
1 TAAAATTTTTATGGATTATTATATATTTT
* * *
57628984 TAAATTTTTTATGTATTTTTATATATTTT
1 TAAAATTTTTATGGATTATTATATATTTT
57629013 TAAAATTTTTA
1 TAAAATTTTTA
57629024 AAATTAAGAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (29 bp):
TAAAATTTTTATGGATTATTATATATTTT
Found at i:57631031 original size:32 final size:32
Alignment explanation
Indices: 57630990--57631050 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
57630980 CAAATTTAGC
57630990 TATACATTCAATTTCTAGGAAGAGAACTTGTA
1 TATACATTCAATTTCTAGGAAGAGAACTTGTA
57631022 TATACATTCAATTTCTAGGAAGAGAACTT
1 TATACATTCAATTTCTAGGAAGAGAACTT
57631051 TACTTATACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (32 bp):
TATACATTCAATTTCTAGGAAGAGAACTTGTA
Found at i:57632745 original size:98 final size:98
Alignment explanation
Indices: 57632628--57632823 Score: 392
Period size: 98 Copynumber: 2.0 Consensus size: 98
57632618 ATTGTGTCGA
57632628 TTGTTTGGTTGTTTTTTCTTGGATAATTTCTTATTGATTGTTTTGTTTTAAAAATTGCTAAGAGT
1 TTGTTTGGTTGTTTTTTCTTGGATAATTTCTTATTGATTGTTTTGTTTTAAAAATTGCTAAGAGT
57632693 CACAAGTATTTGAACTTCTCTTTCTACTGGCAT
66 CACAAGTATTTGAACTTCTCTTTCTACTGGCAT
57632726 TTGTTTGGTTGTTTTTTCTTGGATAATTTCTTATTGATTGTTTTGTTTTAAAAATTGCTAAGAGT
1 TTGTTTGGTTGTTTTTTCTTGGATAATTTCTTATTGATTGTTTTGTTTTAAAAATTGCTAAGAGT
57632791 CACAAGTATTTGAACTTCTCTTTCTACTGGCAT
66 CACAAGTATTTGAACTTCTCTTTCTACTGGCAT
57632824 ATACTTAAAT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.21, C:0.11, G:0.16, T:0.51
Consensus pattern (98 bp):
TTGTTTGGTTGTTTTTTCTTGGATAATTTCTTATTGATTGTTTTGTTTTAAAAATTGCTAAGAGT
CACAAGTATTTGAACTTCTCTTTCTACTGGCAT
Found at i:57639832 original size:20 final size:19
Alignment explanation
Indices: 57639789--57639835 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
57639779 CACTTTATTT
57639789 TATTT-TATTTAATAATAG
1 TATTTATATTTAATAATAG
57639807 TAATTTATATTTAATTAATTA-
1 T-ATTTATATTTAA-TAA-TAG
57639828 TATTTATA
1 TATTTATA
57639836 ACACTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.04
19 4 0.16
20 14 0.56
21 4 0.16
22 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TATTTATATTTAATAATAG
Found at i:57646708 original size:27 final size:27
Alignment explanation
Indices: 57646647--57646710 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
57646637 TTTTAACTTC
* *
57646647 ATAATTTTTTTCCACATTATCTCTTTT
1 ATAATTTTTTTCCACATGATCTCTTAT
57646674 ATAATTTTTTTCCACATAGAT-T-TTAT
1 ATAATTTTTTTCCACAT-GATCTCTTAT
*
57646700 ATAACTTTTTT
1 ATAATTTTTTT
57646711 AGATTTTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.39
27 18 0.55
28 2 0.06
ACGTcount: A:0.27, C:0.14, G:0.02, T:0.58
Consensus pattern (27 bp):
ATAATTTTTTTCCACATGATCTCTTAT
Found at i:57658982 original size:3 final size:3
Alignment explanation
Indices: 57658974--57659006 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
57658964 ATACTTGACC
57658974 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
57659007 TTAATAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:57660910 original size:21 final size:22
Alignment explanation
Indices: 57660873--57660930 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 22
57660863 TTTAAAAATA
57660873 TTTTAAAATAC--TTTTTT-AT
1 TTTTAAAATACTTTTTTTTAAT
57660892 TTTTAAAATACTTTTTTTTAAT
1 TTTTAAAATACTTTTTTTTAAT
57660914 TTTCTAAAAT--TTTTTTT
1 TTT-TAAAATACTTTTTTT
57660931 GGTGTTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.31
21 13 0.37
22 5 0.14
23 6 0.17
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (22 bp):
TTTTAAAATACTTTTTTTTAAT
Found at i:57661803 original size:16 final size:16
Alignment explanation
Indices: 57661784--57661814 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57661774 TTGAAAGAGT
57661784 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
57661800 TTTCAAATTTATATG
1 TTTCAAATATATATG
57661815 CTCTAACATG
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:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:57662559 original size:24 final size:24
Alignment explanation
Indices: 57662505--57662560 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
57662495 ATTCTATATT
**
57662505 TTATTTAATATATAATTAATTTTA
1 TTATTTAATATATAAAAAATTTTA
* *
57662529 TTTTTTATTATATAAAAATATTTTA
1 TTATTTAATATATAAAAA-ATTTTA
57662554 -TATTTAA
1 TTATTTAA
57662561 AATAATGAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATTTAATATATAAAAAATTTTA
Found at i:57664765 original size:8 final size:8
Alignment explanation
Indices: 57664738--57664776 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
57664728 TCAATCTTTC
57664738 TATTTTTGT
1 TATTTTT-T
*
57664747 TTTTATTTT
1 TATT-TTTT
57664756 TATTTTTT
1 TATTTTTT
57664764 TATTTTTT
1 TATTTTTT
57664772 TATTT
1 TATTT
57664777 CGTAAACGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 17 0.63
9 7 0.26
10 3 0.11
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.85
Consensus pattern (8 bp):
TATTTTTT
Found at i:57665550 original size:3 final size:3
Alignment explanation
Indices: 57665542--57665577 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
57665532 TGTTATCATC
* *
57665542 TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
57665578 GTTTTTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:57666546 original size:109 final size:108
Alignment explanation
Indices: 57666355--57666742 Score: 541
Period size: 109 Copynumber: 3.6 Consensus size: 108
57666345 ATATTTAGCA
* * *
57666355 TTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTTGATTTTTCTCCTTCAACCAAATAA
1 TTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATTTTTCTCGTTCAACCAAATAA
*
57666420 CTAAGTATTCTTTTAAAAATTTTAAAATAATGCAATGTTTTGCG
66 CTAAGTA-TCTTTTAAAAATTTTAAAATAATGTAATGTTTTGCG
* * *
57666464 TTTGGAAATTCGAGAAAACGTGTCCTAATGTGTTAGGTTTCGATTTTTCTCGTTTAACCAAATAA
1 TTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATTTTTCTCGTTCAACCAAATAA
* *
57666529 CTAAGTATCCTTTTAAAAATTTCAAAATAATGTAATGTTTTGTG
66 CTAAGTAT-CTTTTAAAAATTTTAAAATAATGTAATGTTTTGCG
*
57666573 TTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTT-GGTTTCGATTTATCTCGTTCAACCAAATA
1 TTTGGAAATTCGAGAAAACGTGCCCTAATGTG-TTGGGTTTCGATTTTTCTCGTTCAACCAAATA
* * * *
57666637 GCCAAATATCTTTCTAAAAATTTTAAAATAAGGTAATGTTTTGCG
65 ACTAAGTATCTTT-TAAAAATTTTAAAATAATGTAATGTTTTGCG
* * * * *
57666682 TTTGGAAATTCGAG-TAACGTACTCTAATGTGTTGGGTTTCGA--TTTCTTGTTTAACCAAATA
1 TTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATTTTTCTCGTTCAACCAAATA
57666743 GTCAAATATC
Statistics
Matches: 251, Mismatches: 24, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
106 16 0.06
107 2 0.01
108 27 0.11
109 204 0.81
110 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (108 bp):
TTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATTTTTCTCGTTCAACCAAATAA
CTAAGTATCTTTTAAAAATTTTAAAATAATGTAATGTTTTGCG
Found at i:57667056 original size:6 final size:6
Alignment explanation
Indices: 57667040--57667081 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
57667030 GGTGACTTCT
* *
57667040 ATTTTC GTTTTC ATTTTC ATTTTT AGTTTTC ATTTTC ATTTT
1 ATTTTC ATTTTC ATTTTC ATTTTC A-TTTTC ATTTTC ATTTT
57667082 TAAAACCCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (6 bp):
ATTTTC
Found at i:57667068 original size:19 final size:19
Alignment explanation
Indices: 57667041--57667083 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
57667031 GTGACTTCTA
*
57667041 TTTTCGTTTTCATTTTCAT
1 TTTTAGTTTTCATTTTCAT
57667060 TTTTAGTTTTCATTTTCAT
1 TTTTAGTTTTCATTTTCAT
57667079 TTTTA
1 TTTTA
57667084 AAACCCAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTTAGTTTTCATTTTCAT
Found at i:57669208 original size:17 final size:17
Alignment explanation
Indices: 57669175--57669217 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
57669165 TATCTTTGTA
57669175 CATTTTTATAATTTTATT
1 CATTTTT-TAATTTTATT
57669193 CATTTTTT-ATTATTATT
1 CATTTTTTAATT-TTATT
*
57669210 GATTTTTT
1 CATTTTTT
57669218 TTACGTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 3 0.13
17 13 0.57
18 7 0.30
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (17 bp):
CATTTTTTAATTTTATT
Found at i:57669671 original size:74 final size:74
Alignment explanation
Indices: 57669530--57669671 Score: 239
Period size: 74 Copynumber: 1.9 Consensus size: 74
57669520 TTTTCAAACT
* * *
57669530 CAAGTTTTAAACGATCTCGAGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCTT
1 CAAGTTTTAAACGATCTCGAGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATACATT
57669595 TTTTTTCCC
66 TTTTTTCCC
* *
57669604 CAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCGTGATACATT
1 CAAGTTTTAAACGATCTCGAGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATACATT
57669669 TTT
66 TTT
57669672 CAAAAATCCG
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 63 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (74 bp):
CAAGTTTTAAACGATCTCGAGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATACATT
TTTTTTCCC
Found at i:57669951 original size:108 final size:109
Alignment explanation
Indices: 57669815--57670011 Score: 297
Period size: 108 Copynumber: 1.8 Consensus size: 109
57669805 AAAAATAATA
* * * * * * *
57669815 AAGGTAATATTTTGCATTTGGGAATTCGAGAAAGCGTGCCCTAATGTGTTGGGTTTCGAT-TTTT
1 AAGGCAATATTTCGCATTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATCTTTC
*
57669879 TCGTTCAACCAAATGGCCAAATATCCTTTTAAAAATTTCAAAAT
66 TCGTTCAACCAAATAGCCAAATATCCTTTTAAAAATTTCAAAAT
57669923 AAGGCAATATTTCGCATTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATCTTTC
1 AAGGCAATATTTCGCATTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATCTTTC
* *
57669988 TCGTTCGACCAAATAGCCGAATAT
66 TCGTTCAACCAAATAGCCAAATAT
57670012 TCTCTCAAAT
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
108 54 0.69
109 24 0.31
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (109 bp):
AAGGCAATATTTCGCATTTAGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATCTTTC
TCGTTCAACCAAATAGCCAAATATCCTTTTAAAAATTTCAAAAT
Found at i:57672007 original size:60 final size:59
Alignment explanation
Indices: 57671841--57672017 Score: 180
Period size: 58 Copynumber: 3.0 Consensus size: 59
57671831 AATTTTTTTG
* * *
57671841 CATTTTGACCCCTAAACTTTTTAAAATTGCATTTTGA-CTCCTAAACTTT-TTAAAATTG
1 CATTTTGACCCCTAAACTTTTTAAAATTACATTTTGACCT-CTAAACTTTCTCAAAATTA
*** * * * * * *
57671899 CAACATGGCCCATGAGCTTTTTAAAATTACATTTTAACC-CTTATACTTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTTTTAAAATTACATTTTGACCTC-TAAACTTTCTCAAAATTA
* *
57671958 CATTTTGACCCCTAAACTTTCTCAAATTTACATTTTGACCTCTAAACTTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTT-TTAAAATTACATTTTGACCTCTAAACTTTCTCAAAATTA
57672018 TGTTTTGGCC
Statistics
Matches: 91, Mismatches: 23, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
57 1 0.01
58 35 0.38
59 21 0.23
60 33 0.36
61 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.40
Consensus pattern (59 bp):
CATTTTGACCCCTAAACTTTTTAAAATTACATTTTGACCTCTAAACTTTCTCAAAATTA
Found at i:57672024 original size:30 final size:30
Alignment explanation
Indices: 57671841--57672017 Score: 171
Period size: 30 Copynumber: 6.0 Consensus size: 30
57671831 AATTTTTTTG
* *
57671841 CATTTTGACCCCTAAACTTT-TTAAAATTG
1 CATTTTGACCCCTAAACTTTCTCAAAATTA
* * *
57671870 CATTTTGACTCCTAAACTTT-TTAAAATTG
1 CATTTTGACCCCTAAACTTTCTCAAAATTA
*** * * * * *
57671899 CAACATGGCCCATGAGCTTT-TTAAAATTA
1 CATTTTGACCCCTAAACTTTCTCAAAATTA
* * *
57671928 CATTTTAACCCTTATACTTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTTCTCAAAATTA
*
57671958 CATTTTGACCCCTAAACTTTCTCAAATTTA
1 CATTTTGACCCCTAAACTTTCTCAAAATTA
*
57671988 CATTTTGACCTCTAAACTTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTTCTCAAAATTA
57672018 TGTTTTGGCC
Statistics
Matches: 121, Mismatches: 26, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
29 59 0.49
30 62 0.51
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.40
Consensus pattern (30 bp):
CATTTTGACCCCTAAACTTTCTCAAAATTA
Found at i:57672371 original size:3 final size:3
Alignment explanation
Indices: 57672363--57672419 Score: 57
Period size: 3 Copynumber: 19.0 Consensus size: 3
57672353 GAGACCTAGC
57672363 GAA GAA GAA GAA GAA GAAA GAA GAA -AA -AA GAAA GAAA GAA GAA -AA
1 GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA G-AA G-AA GAA GAA GAA
*
57672408 GAG GAA GAA GAA
1 GAA GAA GAA GAA
57672420 AGAAAGAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
2 6 0.12
3 32 0.67
4 10 0.21
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:57672396 original size:4 final size:4
Alignment explanation
Indices: 57672376--57672428 Score: 53
Period size: 4 Copynumber: 14.5 Consensus size: 4
57672366 GAAGAAGAAG
* *
57672376 AAGA AAG- AAGA AA-A AAGA AAGA AAG- AAGA AA-A GAGG AAG- AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
57672419 AAGA AAGA AA
1 AAGA AAGA AA
57672429 ATAAAATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
3 14 0.34
4 27 0.66
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:57672399 original size:18 final size:17
Alignment explanation
Indices: 57672364--57672427 Score: 64
Period size: 16 Copynumber: 3.9 Consensus size: 17
57672354 AGACCTAGCG
*
57672364 AAGAAG-AAGAAGAAGA
1 AAGAAGAAAAAAGAAGA
57672380 AAGAAGAAAAAAGAAAGA
1 AAGAAGAAAAAAG-AAGA
*
57672398 AAGAAG--AAAAG-AGG
1 AAGAAGAAAAAAGAAGA
57672412 AAGAAGAAAGAAAGAA
1 AAGAAGAAA-AAAGAA
57672428 AATAAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
14 8 0.20
16 12 0.30
17 9 0.22
18 11 0.28
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAAAAGAAGA
Found at i:57672404 original size:25 final size:25
Alignment explanation
Indices: 57672373--57672427 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
57672363 GAAGAAGAAG
57672373 AAGAAG-AAAGAAGAAAAAAGAAAGA
1 AAGAAGAAAAG-AGAAAAAAGAAAGA
* *
57672398 AAGAAGAAAAGAGGAAGAAGAAAGA
1 AAGAAGAAAAGAGAAAAAAGAAAGA
57672423 AAGAA
1 AAGAA
57672428 AATAAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (25 bp):
AAGAAGAAAAGAGAAAAAAGAAAGA
Found at i:57673080 original size:16 final size:17
Alignment explanation
Indices: 57673059--57673091 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
57673049 TCAAAAAATT
57673059 TTCTCGT-TTTTCAAAA
1 TTCTCGTGTTTTCAAAA
57673075 TTCTCGTGTTTTCAAAA
1 TTCTCGTGTTTTCAAAA
57673092 ATAAGGCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.48
Consensus pattern (17 bp):
TTCTCGTGTTTTCAAAA
Found at i:57673092 original size:18 final size:18
Alignment explanation
Indices: 57673035--57673093 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
57673025 TCGGGTTTTG
* *
57673035 AAATTTTCGTGTCTTCAAA
1 AAATTCTCGTGTTTTC-AA
57673054 AAATTTTCTCGT-TTTTC-A
1 AAA--TTCTCGTGTTTTCAA
57673072 AAATTCTCGTGTTTTCAA
1 AAATTCTCGTGTTTTCAA
57673090 AAAT
1 AAAT
57673094 AAGGCAACGA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
16 7 0.21
17 5 0.15
18 9 0.26
19 3 0.09
20 4 0.12
21 6 0.18
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (18 bp):
AAATTCTCGTGTTTTCAA
Found at i:57673302 original size:18 final size:18
Alignment explanation
Indices: 57673219--57673513 Score: 220
Period size: 17 Copynumber: 16.7 Consensus size: 18
57673209 AAAAAATCCA
*
57673219 GTGTTTTCAAAAAATTTCC
1 GTGTTTTC-AAAAATTTTC
* * *
57673238 AT-TTTCCAAAATTTTTC
1 GTGTTTTCAAAAATTTTC
* * *
57673255 GTGTCTTCTAAAAACTTCC
1 GTGTTTTC-AAAAATTTTC
57673274 GTGTTTT-AAAAATTTTC
1 GTGTTTTCAAAAATTTTC
*
57673291 GTGTTTTCAAAAATTTCC
1 GTGTTTTCAAAAATTTTC
* *
57673309 ATG-TTTAAAAAATTTTC
1 GTGTTTTCAAAAATTTTC
57673326 GTGTTTTC-AAAATTTTGC
1 GTGTTTTCAAAAATTTT-C
* *
57673344 GTG-TTTCAAAAATCTTG
1 GTGTTTTCAAAAATTTTC
*
57673361 GTGTTTTCAAAAA-TTCC
1 GTGTTTTCAAAAATTTTC
**
57673378 G-GTGTTTCAAAAAATTCCC
1 GTGT-TTTC-AAAAATTTTC
*
57673397 GTGTTTT-AAAAATTTCC
1 GTGTTTTCAAAAATTTTC
* *
57673414 ATGTTTTC-AAAATTTCC
1 GTGTTTTCAAAAATTTTC
*
57673431 GTG-TTTCAAAATTCTTTC
1 GTGTTTTCAAAAAT-TTTC
* * **
57673449 GT-ATTTCAAGAATCCTC
1 GTGTTTTCAAAAATTTTC
57673466 GTGTTTTCAAAAA-TTTC
1 GTGTTTTCAAAAATTTTC
*
57673483 GGTGTTTT-GAAAATTTTC
1 -GTGTTTTCAAAAATTTTC
57673501 GTGTTTTCAAAAA
1 GTGTTTTCAAAAA
57673514 AAAATCTCGT
Statistics
Matches: 217, Mismatches: 40, Indels: 39
0.73 0.14 0.13
Matches are distributed among these distances:
16 6 0.03
17 106 0.49
18 82 0.38
19 21 0.10
20 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (18 bp):
GTGTTTTCAAAAATTTTC
Found at i:57673314 original size:35 final size:35
Alignment explanation
Indices: 57673219--57673550 Score: 280
Period size: 35 Copynumber: 9.4 Consensus size: 35
57673209 AAAAAATCCA
* *
57673219 GTGTTTTCAAAAAATTTCCAT-TTTCCAAAATTTTTC
1 GTGTTTTC-AAAAATTTCCGTGTTT-CAAAAATTTTC
* * *
57673255 GTGTCTTCTAAAAACTTCCGTGTTTTAAAAATTTTC
1 GTGTTTTC-AAAAATTTCCGTGTTTCAAAAATTTTC
* *
57673291 GTGTTTTCAAAAATTTCCATGTTTAAAAAATTTTC
1 GTGTTTTCAAAAATTTCCGTGTTTCAAAAATTTTC
* * * *
57673326 GTGTTTTCAAAATTTTGCGTGTTTCAAAAATCTTG
1 GTGTTTTCAAAAATTTCCGTGTTTCAAAAATTTTC
**
57673361 GTGTTTTCAAAAA-TTCCGGTGTTTCAAAAAATTCCC
1 GTGTTTTCAAAAATTTCC-GTGTTTC-AAAAATTTTC
* *
57673397 GTGTTTT-AAAAATTTCCATGTTTTC-AAAATTTCC
1 GTGTTTTCAAAAATTTCCGTG-TTTCAAAAATTTTC
* * * * **
57673431 GTG-TTTCAAAATTCTTTCGTATTTCAAGAATCCTC
1 GTGTTTTCAAAAAT-TTCCGTGTTTCAAAAATTTTC
* **
57673466 GTGTTTTCAAAAATTTCGGTGTTTTGAAAATTTTC
1 GTGTTTTCAAAAATTTCCGTGTTTCAAAAATTTTC
** *
57673501 GTGTTTTCAAAAAAAAATCTCGTGTTTCATAAATTTTC
1 GTGTTTTC--AAAAATTTC-CGTGTTTCAAAAATTTTC
*
57673539 GT-TTTTAAAAAA
1 GTGTTTTCAAAAA
57673551 ATATTATGTC
Statistics
Matches: 236, Mismatches: 48, Indels: 25
0.76 0.16 0.08
Matches are distributed among these distances:
33 3 0.01
34 23 0.10
35 117 0.50
36 63 0.27
37 14 0.06
38 16 0.07
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.44
Consensus pattern (35 bp):
GTGTTTTCAAAAATTTCCGTGTTTCAAAAATTTTC
Found at i:57673526 original size:38 final size:37
Alignment explanation
Indices: 57673474--57673551 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 37
57673464 TCGTGTTTTC
* *
57673474 AAAAATTTCGGTGTTTTGA-AAATTTTCGTGTTTTCAAAA
1 AAAAATCTCGGTG-TTTCATAAATTTTCGT-TTTT-AAAA
57673513 AAAAATCTC-GTGTTTCATAAATTTTCGTTTTTAAAA
1 AAAAATCTCGGTGTTTCATAAATTTTCGTTTTTAAAA
57673549 AAA
1 AAA
57673552 TATTATGTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
36 7 0.19
37 8 0.22
38 13 0.36
39 8 0.22
ACGTcount: A:0.37, C:0.09, G:0.12, T:0.42
Consensus pattern (37 bp):
AAAAATCTCGGTGTTTCATAAATTTTCGTTTTTAAAA
Found at i:57675829 original size:103 final size:103
Alignment explanation
Indices: 57675651--57676019 Score: 537
Period size: 103 Copynumber: 3.6 Consensus size: 103
57675641 AACCGTTATT
* * * * *
57675651 CGGTGGATTCCGCACTTAGCAACCACCAAT-GAATCGGGGAATCAGCACACAGCAACCCCTTGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATAG-GTAGGGGAATCAGCACACAGCAACCCCTCGGG
* * *
57675715 GGAATCAGCACTTAGCAACCCCC-TTCACATTTCAGATG
65 GGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
* * **
57675753 CGGTGGAATCAGCACTTAGCAACCACCAA-ATGAGTCGGGGAGTCAGCACTTAGCAACCCCTCGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATA-G-GTAGGGGAATCAGCACACAGCAACCCCTCGG
57675817 GGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
64 GGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
* * **
57675857 CGGTGGGATCAGCACTTAGCAACCACCAATAGGTAGGGGAATCAACACTTAGCAACCCCTCGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATAGGTAGGGGAATCAGCACACAGCAACCCCTCGGGG
57675922 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
66 GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
*
57675960 CGGTGGGATCAGCACTTAGCAACCACCAATAGGTAGGGGAATCAGCACACAGCAACCCCT
1 CGGTGGAATCAGCACTTAGCAACCACCAATAGGTAGGGGAATCAGCACACAGCAACCCCT
57676020 TTATATGCAA
Statistics
Matches: 246, Mismatches: 17, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
102 27 0.11
103 177 0.72
104 41 0.17
105 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.22, T:0.18
Consensus pattern (103 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATAGGTAGGGGAATCAGCACACAGCAACCCCTCGGGG
GAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATA
Found at i:57676380 original size:30 final size:29
Alignment explanation
Indices: 57676346--57676410 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
57676336 TAATCCACCA
57676346 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
57676376 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
57676406 CCCAA
1 CCCAA
57676411 GCTCGGGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:57676384 original size:31 final size:30
Alignment explanation
Indices: 57676353--57676410 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
57676343 CCACCCAACT
57676353 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
57676383 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
57676411 GCTCGGGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:57682515 original size:13 final size:13
Alignment explanation
Indices: 57682480--57682509 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
57682470 TTATGCCTAA
57682480 AAAAACAAAAAAC
1 AAAAACAAAAAAC
*
57682493 AAAAACAAAAAAG
1 AAAAACAAAAAAC
57682506 AAAA
1 AAAA
57682510 GAAAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAAC
Found at i:57683471 original size:77 final size:77
Alignment explanation
Indices: 57683342--57685733 Score: 1516
Period size: 78 Copynumber: 30.7 Consensus size: 77
57683332 CAAGAAATAT
*** * * * *
57683342 TTTTAAATTTCTGTTTTTTTTTTAAATCAACTCTTAATGCGAGAGGTGAGTTGAGCCTCGGGT-C
1 TTTTAAATTTCTG--TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGTAC
57683406 ATGCCGAGGTATTTC
63 ATGCCGAGGTATTTC
* * *
57683421 TTTTAACTTTCTGTTCTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGTCACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGT-ACAT
*
57683486 GCCGATGTATTTC
65 GCCGAGGTATTTC
* * *
57683499 TTTTAAATTTTTGTTTTTCAAAAATCGACTCATATTGCGAGAAGTGAGTTGAGCCTTAGTCACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGT-ACAT
*
57683564 CCCGAGGTATTTC
65 GCCGAGGTATTTC
*
57683577 TTTTAAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGTCACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGT-ACAT
57683642 GCCGAGGTATTTC
65 GCCGAGGTATTTC
* ** * * * * * * *
57683655 TTTTAAATTTCTGTTTTTTAAATTTCTGTTTTTTTAAATCA-ACTCCTA-ATGCGAGAGGTGAG-
1 TTTTAAATTTCTGTTTTTCAAAAATC---------AACTCATATTGCGAGA--AGTGAGTTGAGC
* * * * *** **
57683717 TTGAG--CCT-CGGACACATGCC
55 CTCAGTACATGCCGAGGTATTTC
** * ****
57683737 GAGGTATTT-CTTTTAAAT-TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
1 ----T-TTTAAATTT--CTGTT-T-TTCAAAAA---TCAACTCATATTGCGAGAAGTGAGTTGAG
* * * *
57683800 CCTCGGTCACACGCTGATGTATTT-
54 CCTCAGT-ACATGCCGAGGTATTTC
* * * *
57683824 TTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT-CAC
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGTACAT
*
57683888 GCTGAGGTA----
65 GCCGAGGTATTTC
* ** * * * *
57683897 TTTTCAATTTCTGTTTTT-TTAAATCAGCTCATATTACGAGAGGTGAGTTGAGCATCAGGTCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA-GT-ACA
*
57683961 TGCTGAGGTATTTC
64 TGCCGAGGTATTTC
* * * *
57683975 TTTTAAATTTCTGTTTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG
1 TTTTAAATTTCTG-----TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AG
* *
57684040 T-CACGCTGAGGTA--T-
60 TACATGCCGAGGTATTTC
* * * *
57684054 TTTT-AATTTCTGGTTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG
1 TTTTAAATTTCT-G----TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AG
* *
57684118 T-CACGCTGAGGTA--T-
60 TACATGCCGAGGTATTTC
* * * *
57684132 TTTT-AATTTCTGTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTC-GTGT
1 TTTTAAATTTCTG---TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGT-A
* *
57684195 CACGCTGAGGTA--T-
62 CATGCCGAGGTATTTC
* * * * *
57684208 TTTTAAATTTCTATTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT
1 TTTTAAATTTC----TGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGT
* *
57684273 --TTCGCTGAGGTA--T-
61 ACAT-GCCGAGGTATTTC
* * *
57684286 TTTT-AATTTCTGTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGAGT-C
1 TTTTAAATTTCTG--TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGTAC
* *
57684349 ACGCTGAGGTATTTC
63 ATGCCGAGGTATTTC
* *
57684364 TTTTAAATTTCTGTTTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-T
1 TTTTAAATTTCTG-----TTTTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA
*
57684428 GGACCATGCCGAGGTATTTC
59 GTA-CATGCCGAGGTATTTC
* * *
57684448 TTTTAAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACCA
1 TTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGTA-CA
57684512 TGCCGAGGTATTTC
64 TGCCGAGGTATTTC
* * * * *
57684526 TTTTAAATTTCTGTTTTTCGAAAATCAACTTATATTGCGAGAGGTGAGTTGAACCTTAG-ACCAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGTA-CAT
57684590 GCCGAGGTATTTC
65 GCCGAGGTATTTC
* * *
57684603 TTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGTCACAC
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGT-ACAT
57684668 GCCGAGGTATTT-
65 GCCGAGGTATTTC
* * *
57684680 TTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT-CAC
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA-GTACAT
*
57684744 GCTGAGGTA----
65 GCCGAGGTATTTC
* ** * * *
57684753 TTTTCAATTTCTGTTTTT-TTAAATCAGCTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCACA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA-GT-ACA
*
57684817 TGCTGAGGTATTTC
64 TGCCGAGGTATTTC
* * * * *
57684831 TTTTAAATTTATGTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT-
1 TTTTAAATTTCTG---TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGTA
* * *
57684895 CACGCTGAGGTATTTT
62 CATGCCGAGGTATTTC
*** * * * * *
57684911 TAATTTCTGTTT-TTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCTTCAGGT-C
1 T--TTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA-GTAC
* *
57684974 ACGCTGAGGTA--T-
63 ATGCCGAGGTATTTC
* * * * *
57684986 TTTTAAATTTC------T--AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT-CAC
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGTACAT
*
57685042 GCTGAGGTA--T-
65 GCCGAGGTATTTC
* * * * *
57685052 TTTT-AATTTCTGTTTTTTTTTCAAAAATTAACTCATAATGCGATAGGTGAGTTGAGCCTCGGGT
1 TTTTAAATTTCTG----TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGT
* *
57685116 -CACGCTGAGGTA--T-
61 ACATGCCGAGGTATTTC
* * * * *
57685129 TTTTAAATTTCTGTTTTTTTTTTCAAAAATCAACTTATAATACGAGAGGTGAGTTGAGCCTCGGG
1 TTTTAAATTTCTG-----TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AG
* * *
57685194 T-CACGCTGATGTA--T-
60 TACATGCCGAGGTATTTC
** * * * * *
57685208 TTTT-AGCTTCTGTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGATTTGAGCCTCGGGT-
1 TTTTAAATTTCTG---TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGTA
* *
57685271 CACGCTGAGGTATTTC
62 CATGCCGAGGTATTTC
*
57685287 TTTTAAATTTCTGATTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G
1 TTTTAAATTTCTG----TTTTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG
*
57685351 GACCATGCCGAGGTATTTC
60 TA-CATGCCGAGGTATTTC
* * *
57685370 TTTTAAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACCA
1 TTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGTA-CA
57685434 TGCCGAGGTATTTC
64 TGCCGAGGTATTTC
* * * * *
57685448 TTTTAAATTTCTGTTTTTCGAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGACCAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGTA-CAT
*
57685512 GCCGACGTATTTC
65 GCCGAGGTATTTC
* * * *
57685525 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGT-CAC
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGTACAT
57685589 GCCGAGGTA--T-
65 GCCGAGGTATTTC
* * * ** * * *
57685599 TTTTCAATTCCTGTTTTTCAAAAATCAACTCATACTGCGAGGGGCGAGTTGAGCCTCGGGTCGCA
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGT-ACA
57685664 TGCCGAGGTA-TTC
64 TGCCGAGGTATTTC
* *
57685677 TTTTCAAA-TTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC
1 TTTT-AAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
57685734 GGGTCGCACG
Statistics
Matches: 1992, Mismatches: 195, Indels: 253
0.82 0.08 0.10
Matches are distributed among these distances:
65 6 0.00
66 55 0.03
68 1 0.00
72 73 0.04
73 41 0.02
74 79 0.04
75 59 0.03
76 161 0.08
77 414 0.21
78 643 0.32
79 109 0.05
80 28 0.01
81 19 0.01
82 73 0.04
83 85 0.04
84 102 0.05
85 2 0.00
86 11 0.01
87 19 0.01
88 7 0.00
89 3 0.00
92 2 0.00
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.37
Consensus pattern (77 bp):
TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGTACATG
CCGAGGTATTTC
Found at i:57683675 original size:15 final size:16
Alignment explanation
Indices: 57683655--57683693 Score: 71
Period size: 15 Copynumber: 2.5 Consensus size: 16
57683645 GAGGTATTTC
57683655 TTTTAAATTTCTG-TT
1 TTTTAAATTTCTGTTT
57683670 TTTTAAATTTCTGTTT
1 TTTTAAATTTCTGTTT
57683686 TTTTAAAT
1 TTTTAAAT
57683694 CAACTCCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (16 bp):
TTTTAAATTTCTGTTT
Found at i:57683735 original size:92 final size:93
Alignment explanation
Indices: 57683577--57683764 Score: 297
Period size: 92 Copynumber: 2.0 Consensus size: 93
57683567 GAGGTATTTC
* * *
57683577 TTTTAAATTTTTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGTCACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCAGACACAT
57683642 GCCGAGGTATTTCTTTTAAATTTCTGTT
66 GCCGAGGTATTTCTTTTAAATTTCTGTT
** * * *
57683670 TTTTAAATTTCTGTTTTT-TTAAATCAACTCCTAATGCGAGAGGTGAGTTGAGCCTCGGACACAT
1 TTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCAGACACAT
57683734 GCCGAGGTATTTCTTTTAAATTTCTGTT
66 GCCGAGGTATTTCTTTTAAATTTCTGTT
57683762 TTT
1 TTT
57683765 CAAAAATCAA
Statistics
Matches: 87, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 70 0.80
93 17 0.20
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (93 bp):
TTTTAAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCAGACACAT
GCCGAGGTATTTCTTTTAAATTTCTGTT
Found at i:57683822 original size:78 final size:76
Alignment explanation
Indices: 57683668--57685738 Score: 2121
Period size: 78 Copynumber: 26.8 Consensus size: 76
57683658 TAAATTTCTG
** * * *
57683668 TTTTTTAAATTTCTGTTTTT-TTAAATCAACTCCTAATGCGAGAGGTGAGTTGAGCCTC-GGACA
1 TTTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
*
57683731 CATGCCGAGGTAT
66 C--GCTGAGGTAT
*
57683744 TTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGTC
1 TT-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT-
*
57683808 ACACGCTGATGTAT
64 -CACGCTGAGGTAT
*
57683822 TTTTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
57683887 CGCTGAGGTA-
66 CGCTGAGGTAT
* ** * * * *
57683897 --TTTTCAATTTCTGTTTTT-TTAAATCAGCTCATATTACGAGAGGTGAGTTGAGCATCAGGTCA
1 TTTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
57683959 CATGCTGAGGTAT
66 C--GCTGAGGTAT
* *
57683972 TTCTTTTAAATTTCTGTTTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTC
1 TT-TTTTAAATTTCTG-----TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
57684037 GGGTCACGCTGAGGTA-
60 GGGTCACGCTGAGGTAT
* *
57684053 -TTTTT-AATTTCTGGTTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCG
1 TTTTTTAAATTTCT-G----TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
57684116 GGTCACGCTGAGGTA-
61 GGTCACGCTGAGGTAT
* * *
57684131 -TTTTT-AATTTCTGTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGTG
1 TTTTTTAAATTTCTG---TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
57684194 TCACGCTGAGGTA-
63 TCACGCTGAGGTAT
* * *
57684207 -TTTTTAAATTTCTATTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGG
1 TTTTTTAAATTTC----TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
**
57684271 GTTTCGCTGAGGTA-
62 GTCACGCTGAGGTAT
* * *
57684285 -TTTTT-AATTTCTGTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGAGT
1 TTTTTTAAATTTCTG--TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
57684348 CACGCTGAGGTAT
64 CACGCTGAGGTAT
57684361 TTCTTTTAAATTTCTGTTTTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TT-TTTTAAATTTCTG-----TTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* ** * *
57684426 TTGGACCATGCCGAGGTAT
58 TCGGGTCACGCTGAGGTAT
* **
57684445 TTCTTTTAAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAC
1 TT-TTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
* *
57684510 CATGCCGAGGTAT
64 CACGCTGAGGTAT
* * * ** **
57684523 TTCTTTTAAATTTCTGTTTTTCGAAAATCAACTTATATTGCGAGAGGTGAGTTGAACCTTAGACC
1 TT-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
* *
57684588 ATGCCGAGGTAT
65 ACGCTGAGGTAT
* *
57684600 TTCTTTTAAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-GGTC
1 TT-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT-
*
57684664 ACACGCCGAGGTAT
64 -CACGCTGAGGTAT
* *
57684678 TTTTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
1 TTTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
57684743 CGCTGAGGTA-
66 CGCTGAGGTAT
* ** * * *
57684753 --TTTTCAATTTCTGTTTTT-TTAAATCAGCTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCA
1 TTTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
57684815 CATGCTGAGGTAT
66 C--GCTGAGGTAT
* * *
57684828 TTCTTTTAAATTTATGTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGG
1 TT-TTTTAAATTTCTG---TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
57684893 GTCACGCTGAGGTA-
62 GTCACGCTGAGGTAT
* * * *
57684907 -TTTTT-AATTTCTGTTTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCTTCA
1 TTTTTTAAATTTCTG-----TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
57684970 GGTCACGCTGAGGTA-
61 GGTCACGCTGAGGTAT
* *
57684985 -TTTTTAAATTTC------T--AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
57685041 CGCTGAGGTA-
66 CGCTGAGGTAT
* * *
57685051 -TTTTT-AATTTCTGTTTTTTTTTCAAAAATTAACTCATAATGCGATAGGTGAGTTGAGCCTCGG
1 TTTTTTAAATTTCTG----TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
57685114 GTCACGCTGAGGTA-
62 GTCACGCTGAGGTAT
* * *
57685128 -TTTTTAAATTTCTGTTTTTTTTTTCAAAAATCAACTTATAATACGAGAGGTGAGTTGAGCCTCG
1 TTTTTTAAATTTCTG-----TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
*
57685192 GGTCACGCTGATGTA-
61 GGTCACGCTGAGGTAT
** * * *
57685207 -TTTTT-AGCTTCTGTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGATTTGAGCCTCGGG
1 TTTTTTAAATTTCTG---TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
57685270 TCACGCTGAGGTAT
63 TCACGCTGAGGTAT
57685284 TTCTTTTAAATTTCTGATTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TT-TTTTAAATTTCTG----TTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
** * *
57685349 CGGACCATGCCGAGGTAT
59 CGGGTCACGCTGAGGTAT
* **
57685367 TTCTTTTAAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAC
1 TT-TTTTAAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
* *
57685432 CATGCCGAGGTAT
64 CACGCTGAGGTAT
* * * **
57685445 TTCTTTTAAATTTCTGTTTTTCGAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACC
1 TT-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
* * *
57685510 ATGCCGACGTAT
65 ACGCTGAGGTAT
*
57685522 TTCTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGTC
1 TT-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
*
57685587 ACGCCGAGGTA-
65 ACGCTGAGGTAT
* * * * *
57685598 -TTTTTCAATTCCTGTTTTTCAAAAATCAACTCATACTGCGAGGGGCGAGTTGAGCCTCGGGTCG
1 TTTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT--
* *
57685662 CATGCCGAGGTAT
64 CACGCTGAGGTAT
* *
57685675 TCTTTTCAAA-TTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTC
1 T-TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
57685739 GCACGCCGAG
Statistics
Matches: 1789, Mismatches: 130, Indels: 152
0.86 0.06 0.07
Matches are distributed among these distances:
65 6 0.00
66 56 0.03
68 1 0.00
72 80 0.04
73 35 0.02
74 73 0.04
75 59 0.03
76 171 0.10
77 423 0.24
78 520 0.29
79 105 0.06
80 19 0.01
81 15 0.01
82 57 0.03
83 68 0.04
84 101 0.06
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.37
Consensus pattern (76 bp):
TTTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
CGCTGAGGTAT
Found at i:57684197 original size:154 final size:153
Alignment explanation
Indices: 57683668--57685735 Score: 2111
Period size: 154 Copynumber: 13.4 Consensus size: 153
57683658 TAAATTTCTG
* *
57683668 TTTTTTAAATTTCTGTTTTTTT---AAATCAACTCCTAATGCGAGAGGTGAGTTGAGCCTCGGAC
1 TTTTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGTC
* *
57683730 ACATGCCGAGGTATTTCTTTTAAATTTCTG--TTTTTCAAAAATCAACTCATATTGCGAGAAGTG
66 AC--GCTGAGGTA-TT-TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTG
*
57683793 AGTTGAGCCTC-GGTCACACGCTGATGTA
127 AGTTGAGCCTCGGGT--CACGCTGAGGTA
* *
57683821 TTTTTTTTAATTTCTG--TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 -TTTTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GG
* * *
57683884 TCACGCTGAGGTA--TTTTCAATTTCTGTTTTTTT---AAATCAGCTCATATTACGAGAGGTGAG
64 TCACGCTGAGGTATTTTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
* *
57683944 TTGAGCATCAGGTCACATGCTGAGGTA
129 TTGAGCCTCGGGTCAC--GCTGAGGTA
*
57683971 TTTCTTTTAAATTTCTGTTTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCT
1 -TT-TTTTAAATTTCTG---TTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCT
* *
57684036 CGGGTCACGCTGAGGTA-TTTTT-AATTTCTGGTTTTTTTTTCAAAAATCAACTCATAATACGAG
61 C-GGTCACGCTGAGGTATTTTTTAAATTTCT-G--TTTTTTTCAAAAATCAACTCATATTGCGAG
57684099 AGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA
122 AGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA
*
57684131 -TTTTT-AATTTCTGTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGTG
1 TTTTTTAAATTTCTG-TTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG-G
* * *
57684194 TCACGCTGAGGTA-TTTTTAAATTTCTATTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTG
64 TCACGCTGAGGTATTTTTTAAATTTC--TGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTG
**
57684258 AGTTGAGCCTCGGGTTTCGCTGAGGTA
127 AGTTGAGCCTCGGGTCACGCTGAGGTA
*
57684285 -TTTTT-AATTTCTGTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGAGT
1 TTTTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG-GT
57684348 CACGCTGAGGTATTTCTTTTAAATTTCTGTTTTTTTTTTCAAAAAAATCAACTCATATTGCGAGA
65 CACGCTGAGGTA-TT-TTTTAAATTTCTG---TTTTTTTC--AAAAATCAACTCATATTGCGAGA
* ** * *
57684413 GGTGAGTTGAGCCTTGGACCATGCCGAGGTA
123 GGTGAGTTGAGCCTCGGGTCACGCTGAGGTA
* *
57684444 TTTCTTTTAAATTTATG--TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
1 -TT-TTTTAAATTTCTGTTTTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
* * * * *
57684507 GACCATGCCGAGGTATTTCTTTTAAATTTCTG--TTTTTCGAAAATCAACTTATATTGCGAGAGG
63 G-TCACGCTGAGGTA-TT-TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGG
* ** ** * *
57684570 TGAGTTGAACCTTAGACCATGCCGAGGTA
125 TGAGTTGAGCCTCGGGTCACGCTGAGGTA
* * *
57684599 TTTCTTTTAAATTTC--TATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGG
1 -TT-TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
* *
57684662 TCACACGCCGAGGTATTTTTTTTAATTTCTG--TTTTTCAAAAATCAACTCATATTGCGAGAGGT
64 T--CACGCTGAGGTA-TTTTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGT
*
57684725 GAGTTGAGCCTCAGGTCACGCTGAGGTA
126 GAGTTGAGCCTCGGGTCACGCTGAGGTA
* * * *
57684753 --TTTTCAATTTCTGTTTTTTT---AAATCAGCTCATATTACGAGAGGTGAGTTGAGCCTCAGGT
1 TTTTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGT
* * *
57684813 CACATGCTGAGGTATTTCTTTTAAATTTATGTTTTTTTTCAAAAATCAACTCATAATACGAGAGG
65 CAC--GCTGAGGTA-TT-TTTTAAATTTCTG-TTTTTTTCAAAAATCAACTCATATTGCGAGAGG
57684878 TGAGTTGAGCCTCGGGTCACGCTGAGGTA
125 TGAGTTGAGCCTCGGGTCACGCTGAGGTA
* *
57684907 -TTTTT-AATTTCTGTTTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCTTCA
1 TTTTTTAAATTTCTG---TTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-
* *
57684970 GGTCACGCTGAGGTA-TTTTTAAATTTC--------T--AAAATCAACTCATAATACGAGAGGTG
62 GGTCACGCTGAGGTATTTTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTG
57685024 AGTTGAGCCTCGGGTCACGCTGAGGTA
127 AGTTGAGCCTCGGGTCACGCTGAGGTA
* *
57685051 -TTTTT-AATTTCTGTTTTTTTTTCAAAAATTAACTCATAATGCGATAGGTGAGTTGAGCCTCGG
1 TTTTTTAAATTTCTG--TTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-G
* * *
57685114 GTCACGCTGAGGTA-TTTTTAAATTTCTGTTTTTTTTTTCAAAAATCAACTTATAATACGAGAGG
63 GTCACGCTGAGGTATTTTTTAAATTTCTG---TTTTTTTCAAAAATCAACTCATATTGCGAGAGG
*
57685178 TGAGTTGAGCCTCGGGTCACGCTGATGTA
125 TGAGTTGAGCCTCGGGTCACGCTGAGGTA
** * *
57685207 -TTTTT-AGCTTCTGTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGATTTGAGCCTCGGG
1 TTTTTTAAATTTCTG-TTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GG
57685270 TCACGCTGAGGTATTTCTTTTAAATTTCTGATTTTTTTTCAAAAAAATCAACTCATATTGCGAGA
64 TCACGCTGAGGTA-TT-TTTTAAATTTCTG--TTTTTTTC--AAAAATCAACTCATATTGCGAGA
** * *
57685335 GGTGAGTTGAGCCTCGGACCATGCCGAGGTA
123 GGTGAGTTGAGCCTCGGGTCACGCTGAGGTA
* *
57685366 TTTCTTTTAAATTTATG--TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
1 -TT-TTTTAAATTTCTGTTTTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
* * * * *
57685429 GACCATGCCGAGGTATTTCTTTTAAATTTCTG--TTTTTCGAAAATTAACTCATATTGCGAGAGG
63 G-TCACGCTGAGGTA-TT-TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGG
* ** * * *
57685492 TGAGTTGAGCCTTGGACCATGCCGACGTA
125 TGAGTTGAGCCTCGGGTCACGCTGAGGTA
* *
57685521 TTTCTTTTAAATTTCTG--TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGG
1 -TT-TTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-G
* * * * * *
57685584 GTCACGCCGAGGTA-TTTTTCAATTCCTG--TTTTTCAAAAATCAACTCATACTGCGAGGGGCGA
63 GTCACGCTGAGGTATTTTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGA
* *
57685646 GTTGAGCCTCGGGTCGCATGCCGAGGTA
128 GTTGAGCCTCGGGT--CACGCTGAGGTA
* *
57685674 TTCTTTTCAAA-TTCTG--TTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGG
1 TT-TTTT-AAATTTCTGTTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
57685736 GTCGCACGCC
Statistics
Matches: 1704, Mismatches: 122, Indels: 179
0.85 0.06 0.09
Matches are distributed among these distances:
143 71 0.04
144 66 0.04
146 1 0.00
148 6 0.00
149 65 0.04
150 50 0.03
151 76 0.04
152 71 0.04
153 76 0.04
154 379 0.22
155 272 0.16
156 152 0.09
157 47 0.03
158 23 0.01
159 98 0.06
160 57 0.03
161 71 0.04
162 111 0.07
163 12 0.01
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.37
Consensus pattern (153 bp):
TTTTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGTC
ACGCTGAGGTATTTTTTAAATTTCTGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCCTCGGGTCACGCTGAGGTA
Found at i:57685023 original size:144 final size:143
Alignment explanation
Indices: 57684849--57685738 Score: 677
Period size: 155 Copynumber: 5.9 Consensus size: 143
57684839 TTATGTTTTT
*
57684849 TTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAA
1 TTTCTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAA
* *
57684914 TTTCTGTTTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCTTCAGGTCACGCT
66 TTTCTG-TTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCT
57684979 GAGGTATTTTTAAA
130 GAGGTATTTTTAAA
57684993 TTTCTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAA
1 TTTCTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAA
* * *
57685058 TTTCTGTTTTTTTTTCAAAAATTAACTCATAATGCGATAGGTGAGTTGAGCCTCGGGTCACGCTG
66 TTTCTGTTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTG
57685123 AGGTATTTTTAAA
131 AGGTATTTTTAAA
*
57685136 TTTCTGTTTTTTTTTTCAAAAATCAACTTATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCT
1 TTTC-----------T--AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCT
* ** *
57685201 GATGTATTTTTAGCTTCTG-TTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGATTTGAGCC
53 GAGGTATTTTTAATTTCTGTTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCC
57685265 TCGGGTCACGCTGAGGTATTTCTTTTAAA
118 TCGGGTCACGCTGAGGTA--T-TTTTAAA
* * ** *
57685294 TTTCTGATTTTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACCATGC
1 TTTC----------T----AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGC
* * *** * *
57685359 CGAGGTATTTCT--TTTAAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
52 TGAGGTATTTTTAATTTCTGTTT-T-TTTTTC-AAAAATCAACTCATAATACGAGAGGTGAGTTG
** * *
57685422 AGCCTCGGACCATGCCGAGGTATTTCTTTTAAA
114 AGCCTCGGGTCACGCTGAGGTA--T-TTTTAAA
* * * * ** * * *
57685455 TTTCTGTTTTTCGAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGACCATGCCGACGT
1 TTTC------T--AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGT
* * *
57685520 ATTTCTTTTAAATTTCTG----TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCT
58 A--T-TTTT-AATTTCTGTTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCT
* *
57685581 CGGGTCACGCCGAGGTATTTTTCAATTCCTGTT
119 CGGGTCACGCTGAGGTATTTTT-AA-------A
* * * * * * *
57685614 TTTCAAAAATCAACTCATACTGCGAGGGGCGAGTTGAGCCTCGGGTCGCATGCCGAGGTATTCTT
1 TTTCTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT--CACGCTGAGGTA-T-TT
* * * *
57685679 TTCAAATTCTG----TTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTC
62 TT-AATTTCTGTTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
57685739 GCACGCCGAG
Statistics
Matches: 642, Mismatches: 66, Indels: 68
0.83 0.09 0.09
Matches are distributed among these distances:
143 71 0.11
144 70 0.11
151 38 0.06
152 64 0.10
153 11 0.02
154 51 0.08
155 115 0.18
156 62 0.10
157 18 0.03
158 16 0.02
159 55 0.09
160 6 0.01
161 65 0.10
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (143 bp):
TTTCTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAA
TTTCTGTTTTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTG
AGGTATTTTTAAA
Found at i:57685040 original size:66 final size:66
Alignment explanation
Indices: 57684927--57685140 Score: 259
Period size: 66 Copynumber: 3.1 Consensus size: 66
57684917 CTGTTTTTTT
* * *
57684927 TTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCTTCAGGTCACGCTGAGGTATTTTTAA
1 TTTCTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAA
57684992 A
66 A
57684993 TTTCTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT-A
1 TTTCTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAA
57685057 A
66 A
* * *
57685058 TTTCTGTTTTTTTTTCAAAAATTAACTCATAATGCGATAGGTGAGTTGAGCCTCGGGTCACGCTG
1 TTTC----------T--AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTG
57685123 AGGTATTTTTAAA
54 AGGTATTTTTAAA
57685136 TTTCT
1 TTTCT
57685141 GTTTTTTTTT
Statistics
Matches: 129, Mismatches: 6, Indels: 24
0.81 0.04 0.15
Matches are distributed among these distances:
65 6 0.05
66 60 0.47
68 1 0.01
75 1 0.01
77 55 0.43
78 6 0.05
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (66 bp):
TTTCTAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTAA
A
Found at i:57685962 original size:28 final size:30
Alignment explanation
Indices: 57685930--57686107 Score: 179
Period size: 30 Copynumber: 6.1 Consensus size: 30
57685920 TTAATTTTTT
*
57685930 TTACATTTTGA-CCCTAAACTTT-TTAAAA
1 TTACATTTTGACCCCTAAACTTTCTCAAAA
*
57685958 TTACA-TTTGACCCCTAAACTTT-TTAAAA
1 TTACATTTTGACCCCTAAACTTTCTCAAAA
* *** ** *
57685986 TTGCACCATGACCCCTGAGCCTTT-T-GAAA
1 TTACATTTTGACCCCT-AAACTTTCTCAAAA
* * *
57686015 TTACATTTTAACCCTTATACTTTCTCAAAA
1 TTACATTTTGACCCCTAAACTTTCTCAAAA
57686045 TTACATTTTGACCCCTAAACTTTCTCAAAA
1 TTACATTTTGACCCCTAAACTTTCTCAAAA
* *
57686075 TTACATTTTAACCTCTAAACTTTCTCAAAA
1 TTACATTTTGACCCCTAAACTTTCTCAAAA
57686105 TTA
1 TTA
57686108 TGTTTAGGCC
Statistics
Matches: 125, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 5 0.04
28 31 0.25
29 22 0.18
30 67 0.54
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (30 bp):
TTACATTTTGACCCCTAAACTTTCTCAAAA
Found at i:57686524 original size:25 final size:25
Alignment explanation
Indices: 57686464--57686525 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
57686454 GAAGAAGAAG
* *
57686464 AAGAAGAAAAAAGAAAGAAAGAATTA
1 AAGAA-AAAGAAGAAAGAAAGAAATA
**
57686490 AAGAGGAAGAAGAAAGAAAGAAAATA
1 AAGAAAAAGAAGAAAGAAAG-AAATA
57686516 AA-AAAAAGAA
1 AAGAAAAAGAA
57686526 AATAAATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 19 0.66
26 10 0.34
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (25 bp):
AAGAAAAAGAAGAAAGAAAGAAATA
Found at i:57687200 original size:18 final size:19
Alignment explanation
Indices: 57687160--57687199 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
57687150 TCGGGTTTTG
*
57687160 AAATTTTCGTGTCTTCAAA
1 AAATTCTCGTGTCTTCAAA
*
57687179 AAATTCTCGTGTTTTCAAA
1 AAATTCTCGTGTCTTCAAA
57687198 AA
1 AA
57687200 TAAGGCAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (19 bp):
AAATTCTCGTGTCTTCAAA
Found at i:57687351 original size:17 final size:18
Alignment explanation
Indices: 57687332--57687623 Score: 148
Period size: 17 Copynumber: 16.6 Consensus size: 18
57687322 AATCCAGTGT
*
57687332 TTTCAAAAAATTTCCAT-
1 TTTCAAAAAATTTCCGTG
* * *
57687349 TTTCCAAAATTTTTCGTG
1 TTTCAAAAAATTTCCGTG
* *
57687367 TCTTCTAAAAACTTCCGTG
1 T-TTCAAAAAATTTCCGTG
*
57687386 TTTC-AAAAATTTTCGTG
1 TTTCAAAAAATTTCCGTG
*
57687403 TTTTC-AAAAATTTCCATG
1 -TTTCAAAAAATTTCCGTG
*
57687421 TTTC-AAAAATTTTCGTG
1 TTTCAAAAAATTTCCGTG
* *
57687438 TTTTC-AAAATTTTGCGTG
1 -TTTCAAAAAATTTCCGTG
*
57687456 TTTC-AAAAATCTT-GGTG
1 TTTCAAAAAAT-TTCCGTG
*
57687473 TTTTC-AAAAA-TTCTGGTG
1 -TTTCAAAAAATTTC-CGTG
*
57687491 TTTCAAAAAATTCCCGTG
1 TTTCAAAAAATTTCCGTG
* *
57687509 TTT-TAAAAATTTCTGTG
1 TTTCAAAAAATTTCCGTG
*
57687526 TTTTC--AAAATTTTCGTG
1 -TTTCAAAAAATTTCCGTG
* * *
57687543 TTTCAAAAATTTTTCGTA
1 TTTCAAAAAATTTCCGTG
* *
57687561 TTTC-AAGAA-TCCTCGTG
1 TTTCAAAAAATTTC-CGTG
*
57687578 TTTTC-AAAAATTTCGGTG
1 -TTTCAAAAAATTTCCGTG
** *
57687596 TTT-TGAAAATTTTCGTG
1 TTTCAAAAAATTTCCGTG
57687613 TTTTCAAAAAA
1 -TTTCAAAAAA
57687624 AAATCTCGTG
Statistics
Matches: 215, Mismatches: 40, Indels: 38
0.73 0.14 0.13
Matches are distributed among these distances:
16 7 0.03
17 95 0.44
18 91 0.42
19 22 0.10
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (18 bp):
TTTCAAAAAATTTCCGTG
Found at i:57687407 original size:18 final size:18
Alignment explanation
Indices: 57687328--57687622 Score: 256
Period size: 18 Copynumber: 16.7 Consensus size: 18
57687318 AAAAAATCCA
*
57687328 GTGTTTTCAAAAAATTTCC
1 GTGTTTTC-AAAAATTTTC
* * *
57687347 AT-TTTCCAAAATTTTTC
1 GTGTTTTCAAAAATTTTC
* * *
57687364 GTGTCTTCTAAAAACTTCC
1 GTGTTTTC-AAAAATTTTC
57687383 GTG-TTTCAAAAATTTTC
1 GTGTTTTCAAAAATTTTC
*
57687400 GTGTTTTCAAAAATTTCC
1 GTGTTTTCAAAAATTTTC
*
57687418 ATG-TTTCAAAAATTTTC
1 GTGTTTTCAAAAATTTTC
57687435 GTGTTTTC-AAAATTTTGC
1 GTGTTTTCAAAAATTTT-C
* *
57687453 GTG-TTTCAAAAATCTTG
1 GTGTTTTCAAAAATTTTC
* *
57687470 GTGTTTTCAAAAATTCTG
1 GTGTTTTCAAAAATTTTC
**
57687488 GTG-TTTCAAAAAATTCCC
1 GTGTTTTC-AAAAATTTTC
57687506 GTGTTTT-AAAAA-TTTC
1 GTGTTTTCAAAAATTTTC
57687522 TGTGTTTTC-AAAATTTTC
1 -GTGTTTTCAAAAATTTTC
57687540 GTG-TTTCAAAAATTTTTC
1 GTGTTTTCAAAAA-TTTTC
* * **
57687558 GT-ATTTCAAGAATCCTC
1 GTGTTTTCAAAAATTTTC
57687575 GTGTTTTCAAAAA-TTTC
1 GTGTTTTCAAAAATTTTC
*
57687592 GGTGTTTT-GAAAATTTTC
1 -GTGTTTTCAAAAATTTTC
57687610 GTGTTTTCAAAAA
1 GTGTTTTCAAAAA
57687623 AAAATCTCGT
Statistics
Matches: 223, Mismatches: 34, Indels: 39
0.75 0.11 0.13
Matches are distributed among these distances:
16 6 0.03
17 95 0.43
18 108 0.48
19 14 0.06
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (18 bp):
GTGTTTTCAAAAATTTTC
Found at i:57687423 original size:35 final size:35
Alignment explanation
Indices: 57687328--57687659 Score: 307
Period size: 35 Copynumber: 9.4 Consensus size: 35
57687318 AAAAAATCCA
* *
57687328 GTGTTTTCAAAAAATTTCCAT-TTTCCAAAATTTTTC
1 GTGTTTTC-AAAAATTTCCGTGTTT-CAAAAATTTTC
* *
57687364 GTGTCTTCTAAAAACTTCCGTGTTTCAAAAATTTTC
1 GTGTTTTC-AAAAATTTCCGTGTTTCAAAAATTTTC
*
57687400 GTGTTTTCAAAAATTTCCATGTTTCAAAAATTTTC
1 GTGTTTTCAAAAATTTCCGTGTTTCAAAAATTTTC
* * * *
57687435 GTGTTTTCAAAATTTTGCGTGTTTCAAAAATCTTG
1 GTGTTTTCAAAAATTTCCGTGTTTCAAAAATTTTC
* **
57687470 GTGTTTTCAAAAA-TTCTGGTGTTTCAAAAAATTCCC
1 GTGTTTTCAAAAATTTC-CGTGTTTC-AAAAATTTTC
*
57687506 GTGTTTT-AAAAATTTCTGTGTTTTC-AAAATTTTC
1 GTGTTTTCAAAAATTTCCGTG-TTTCAAAAATTTTC
* * * **
57687540 GTG-TTTCAAAAATTTTTCGTATTTCAAGAATCCTC
1 GTGTTTTCAAAAA-TTTCCGTGTTTCAAAAATTTTC
* **
57687575 GTGTTTTCAAAAATTTCGGTGTTTTGAAAATTTTC
1 GTGTTTTCAAAAATTTCCGTGTTTCAAAAATTTTC
** *
57687610 GTGTTTTCAAAAAAAAATCTCGTGTTTCATAAATTTTC
1 GTGTTTTC--AAAAATTTC-CGTGTTTCAAAAATTTTC
*
57687648 GT-TTTTAAAAAA
1 GTGTTTTCAAAAA
57687660 AATATTATGT
Statistics
Matches: 240, Mismatches: 44, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
33 3 0.01
34 21 0.09
35 123 0.51
36 63 0.26
37 14 0.06
38 16 0.07
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.45
Consensus pattern (35 bp):
GTGTTTTCAAAAATTTCCGTGTTTCAAAAATTTTC
Found at i:57687635 original size:38 final size:37
Alignment explanation
Indices: 57687583--57687661 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 37
57687573 TCGTGTTTTC
* *
57687583 AAAAATTTCGGTGTTTTGA-AAATTTTCGTGTTTTCAAAA
1 AAAAATCTCGGTG-TTTCATAAATTTTCGT-TTTT-AAAA
57687622 AAAAATCTC-GTGTTTCATAAATTTTCGTTTTTAAAA
1 AAAAATCTCGGTGTTTCATAAATTTTCGTTTTTAAAA
57687658 AAAA
1 AAAA
57687662 TATTATGTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
36 8 0.22
37 8 0.22
38 13 0.35
39 8 0.22
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.42
Consensus pattern (37 bp):
AAAAATCTCGGTGTTTCATAAATTTTCGTTTTTAAAA
Found at i:57690139 original size:16 final size:16
Alignment explanation
Indices: 57690116--57690149 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 16
57690106 TATTATATAT
57690116 ATATATTTCTAATTTTTA
1 ATAT-TTTCT-ATTTTTA
57690134 ATATTTTCTATTTTTA
1 ATATTTTCTATTTTTA
57690150 TTAAAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 5 0.31
18 4 0.25
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (16 bp):
ATATTTTCTATTTTTA
Found at i:57691199 original size:34 final size:35
Alignment explanation
Indices: 57691144--57691210 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
57691134 CAAACACCAG
*
57691144 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
57691179 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
57691211 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:57693328 original size:15 final size:15
Alignment explanation
Indices: 57693310--57693340 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
57693300 GTGATTTTAA
*
57693310 AAGATATGATATCAC
1 AAGAAATGATATCAC
57693325 AAGAAATGATATCAC
1 AAGAAATGATATCAC
57693340 A
1 A
57693341 CAATTTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.13, G:0.13, T:0.23
Consensus pattern (15 bp):
AAGAAATGATATCAC
Found at i:57693604 original size:40 final size:40
Alignment explanation
Indices: 57693509--57693606 Score: 103
Period size: 39 Copynumber: 2.5 Consensus size: 40
57693499 GATGTCAGGG
* *
57693509 GACGTGTC-AGCAAATCGCGTCCACGTCAGCGCGATTACT
1 GACGTGGCAAGCAAATCGCGTCCACGTAAGCGCGATTACT
* * * * *
57693548 TACGTGGCAA-TAAATCGTGTCCATGTAAGCGCGATTTGCT
1 GACGTGGCAAGCAAATCGCGTCCACGTAAGCGCGA-TTACT
57693588 GACGTGG-AAGCAAATCGCG
1 GACGTGGCAAGCAAATCGCG
57693607 CTTACGTGAA
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
39 28 0.61
40 18 0.39
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
GACGTGGCAAGCAAATCGCGTCCACGTAAGCGCGATTACT
Found at i:57698834 original size:169 final size:170
Alignment explanation
Indices: 57698514--57698850 Score: 613
Period size: 169 Copynumber: 2.0 Consensus size: 170
57698504 CCAAGTAATT
57698514 AATCTTACCTAATTGACCATATAAACCTATTTGCATATTTCTCCGATCATATTATCTCAAACCAT
1 AATCTTACCTAATTGACCATATAAACCTATTTGCATATTTCTCCGATCATATTATCTCAAACCAT
* *
57698579 ACATTATCATAATTCATAAATTATTCGTTACTCAACCACATTAAACTCCACAAACATATTAAGCC
66 ACATTATCATAATTCATAAATTATCCGTTACTCAACCACATTAAACACCACAAACATATTAAGCC
* *
57698644 ACACATACATATACATATCAAAATATGTCCAAGTCAAGCC
131 ACACATACATATACATATCAAAATATATCCAACTCAAGCC
* *
57698684 AATCTTACCTAATTGACCATATAAACCTATTTGCATATTTCTCTGATCATATTATCTTAAACCAT
1 AATCTTACCTAATTGACCATATAAACCTATTTGCATATTTCTCCGATCATATTATCTCAAACCAT
57698749 ACATTATCAT-ATTCATAAATTATCCGTTACTCAACCACATTAAACACCACAAACATATTAAGCC
66 ACATTATCATAATTCATAAATTATCCGTTACTCAACCACATTAAACACCACAAACATATTAAGCC
57698813 ACACATACATATACATATCAAAATATATCCAACTCAAG
131 ACACATACATATACATATCAAAATATATCCAACTCAAG
57698851 TCATTCAAAT
Statistics
Matches: 161, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
169 88 0.55
170 73 0.45
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.31
Consensus pattern (170 bp):
AATCTTACCTAATTGACCATATAAACCTATTTGCATATTTCTCCGATCATATTATCTCAAACCAT
ACATTATCATAATTCATAAATTATCCGTTACTCAACCACATTAAACACCACAAACATATTAAGCC
ACACATACATATACATATCAAAATATATCCAACTCAAGCC
Found at i:57700406 original size:13 final size:13
Alignment explanation
Indices: 57700388--57700412 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57700378 CGGGCCATGC
57700388 GCGCATGACACAG
1 GCGCATGACACAG
57700401 GCGCATGACACA
1 GCGCATGACACA
57700413 ACCATGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.32, G:0.28, T:0.08
Consensus pattern (13 bp):
GCGCATGACACAG
Found at i:57702445 original size:18 final size:18
Alignment explanation
Indices: 57702396--57702445 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
57702386 GACTATACTT
* *
57702396 GATAAATTATAAA-GCCT
1 GATAAATGATAAATGCCC
*
57702413 GATAAAATGA-CAATGCCC
1 GAT-AAATGATAAATGCCC
57702431 GATAAATGATAAATG
1 GATAAATGATAAATG
57702446 ATAATGTCTG
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (18 bp):
GATAAATGATAAATGCCC
Found at i:57704398 original size:43 final size:43
Alignment explanation
Indices: 57704351--57704482 Score: 135
Period size: 43 Copynumber: 3.1 Consensus size: 43
57704341 CTTACGTGTT
* * * *
57704351 ATCATATATCGATGCCACTGTCCTAGACAAGGTCTTACACGAA
1 ATCATATATCAATACCAATGTCCTAGACATGGTCTTACACGAA
* * * *
57704394 ATCATATA-CTATTCCAATATCCTAGACATGGTCTTACACGTA
1 ATCATATATCAATACCAATGTCCTAGACATGGTCTTACACGAA
* *
57704436 ATC-TCTAATCAATACCAATGT-CTCAGACATGGTCTTACACGAT
1 ATCATAT-ATCAATACCAATGTCCT-AGACATGGTCTTACACGAA
57704479 ATCA
1 ATCA
57704483 CATCTCGGAA
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
41 2 0.03
42 34 0.47
43 37 0.51
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (43 bp):
ATCATATATCAATACCAATGTCCTAGACATGGTCTTACACGAA
Found at i:57710457 original size:14 final size:14
Alignment explanation
Indices: 57710438--57710471 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
57710428 TATGACATTT
57710438 TATTATT-TTATTAA
1 TATTATTGTTATT-A
57710452 TATTATTGTTATTA
1 TATTATTGTTATTA
57710466 TATTAT
1 TATTAT
57710472 GAAATAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (14 bp):
TATTATTGTTATTA
Found at i:57712687 original size:50 final size:50
Alignment explanation
Indices: 57712612--57712736 Score: 200
Period size: 50 Copynumber: 2.5 Consensus size: 50
57712602 AGTACTTCTA
57712612 ATCAGTGACAAGTGATA-AGTGATAAGTGGTAGCCTAGCTACACTTATCTG
1 ATCAGTGACAAGTGA-ACAGTGATAAGTGGTAGCCTAGCTACACTTATCTG
* *
57712662 ATCAGTGATAAGTGAACAGTGATAAGTGGTAGCTTAGCTACACTTATCTG
1 ATCAGTGACAAGTGAACAGTGATAAGTGGTAGCCTAGCTACACTTATCTG
57712712 ATCAGTGACAAGTG-ACAAGTGATAA
1 ATCAGTGACAAGTGAAC-AGTGATAA
57712737 AAGTGATCCG
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
49 3 0.04
50 67 0.96
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (50 bp):
ATCAGTGACAAGTGAACAGTGATAAGTGGTAGCCTAGCTACACTTATCTG
Found at i:57719593 original size:5 final size:5
Alignment explanation
Indices: 57719585--57719610 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
57719575 GAGATGGAAT
57719585 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
57719611 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:57720295 original size:30 final size:31
Alignment explanation
Indices: 57720256--57720315 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
57720246 GGAGGTGGGA
*
57720256 TGGGAAGGGAATAAAAGTTTTAGG-GGAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGAGGAAAAG
*
57720287 TGGG-AGGGAGTAAAAATTTTGGAGGAAAA
1 TGGGAAGGGAATAAAAATTTTGGAGGAAAA
57720316 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 2 0.08
30 20 0.77
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGAGGAAAAG
Found at i:57720543 original size:9 final size:9
Alignment explanation
Indices: 57720529--57720565 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
57720519 TATAGTTTGA
57720529 TATTCGAAT
1 TATTCGAAT
57720538 TATTCGAAT
1 TATTCGAAT
*
57720547 TATTCGAGT
1 TATTCGAAT
57720556 TATTCGAAT
1 TATTCGAAT
57720565 T
1 T
57720566 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:57723319 original size:33 final size:33
Alignment explanation
Indices: 57723279--57723345 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
57723269 GTCATCGCTA
57723279 TTTTTGCATGTTTTTGGTATAAGGTAAATTGAT
1 TTTTTGCATGTTTTTGGTATAAGGTAAATTGAT
57723312 TTTTTGCATGTTTTTGGTATAAGGTAAATTGAT
1 TTTTTGCATGTTTTTGGTATAAGGTAAATTGAT
57723345 T
1 T
57723346 ATCTGTCATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.03, G:0.21, T:0.52
Consensus pattern (33 bp):
TTTTTGCATGTTTTTGGTATAAGGTAAATTGAT
Found at i:57725595 original size:6 final size:7
Alignment explanation
Indices: 57725583--57725607 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
57725573 AAAATAAAAA
57725583 TATTTTT
1 TATTTTT
57725590 TATTTTT
1 TATTTTT
57725597 TATTTTT
1 TATTTTT
57725604 TATT
1 TATT
57725608 AAGTTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TATTTTT
Found at i:57729915 original size:24 final size:24
Alignment explanation
Indices: 57729867--57729921 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
57729857 TATTCAATTT
57729867 TCATA-TTTCAATTCAATCACTTTC
1 TCATATTTTCAATTCAATCAC-TTC
*
57729891 TCATATTTTCCATTCAAATCA-TTC
1 TCATATTTTCAATTC-AATCACTTC
57729915 TCA-ATTT
1 TCATATTT
57729922 AATCACAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 4 0.14
24 11 0.39
25 8 0.29
26 5 0.18
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (24 bp):
TCATATTTTCAATTCAATCACTTC
Found at i:57730906 original size:5 final size:5
Alignment explanation
Indices: 57730898--57730974 Score: 56
Period size: 5 Copynumber: 15.8 Consensus size: 5
57730888 TGATTTATTT
* * *
57730898 TATAA TATAA TAT-- TACAA TATAA T-TAA TATAAA TTACAA TATAA TAAAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TAT-AA -TATAA TATAA TATAA
*
57730947 TAATAA TATAA TCTAA T-TAA -ATAA TATA
1 T-ATAA TATAA TATAA TATAA TATAA TATA
57730975 TTTATATATA
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
3 2 0.04
4 10 0.18
5 35 0.61
6 8 0.14
7 2 0.04
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (5 bp):
TATAA
Found at i:57730935 original size:21 final size:22
Alignment explanation
Indices: 57730900--57730973 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
57730890 ATTTATTTTA
57730900 TAATATAATATTACAATATAAT
1 TAATATAATATTACAATATAAT
57730922 TAATATAA-ATTACAATATAA-
1 TAATATAATATTACAATATAAT
* * * *
57730942 TAAAATAATAATATAATCTAAT
1 TAATATAATATTACAATATAAT
57730964 TAA-ATAATAT
1 TAATATAATAT
57730974 ATTTATATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 7 0.16
21 27 0.60
22 11 0.24
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
TAATATAATATTACAATATAAT
Found at i:57731664 original size:15 final size:15
Alignment explanation
Indices: 57731644--57731673 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
57731634 TTATAGTGAG
57731644 TGGATAATTTTTTTT
1 TGGATAATTTTTTTT
57731659 TGGATAATTTTTTTT
1 TGGATAATTTTTTTT
57731674 AACTTTTAAA
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:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (15 bp):
TGGATAATTTTTTTT
Found at i:57733448 original size:39 final size:39
Alignment explanation
Indices: 57733320--57733454 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 39
57733310 CATTTGAACA
* *
57733320 AAAAACGCCACTAAAAATCAAGCATTAGTGGCGCTTTTAT-
1 AAAAACGCCGCTAAAAAT-AAGCATTAGCGGCGCTTTT-TG
** *
57733360 AAAAACGCCGCTAAAGGTAGAGCATTAGCGGTGCTTTTTCG
1 AAAAACGCCGCTAAAAATA-AGCATTAGCGGCGCTTTTT-G
*
57733401 -AAAACGCCGCTAAAAATAACCATTAGCGGCG-TTTTCTG
1 AAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTT-TG
*
57733439 AAAAGCGCCGC-AAAAA
1 AAAAACGCCGCTAAAAA
57733455 GCCTAAGCCC
Statistics
Matches: 80, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
38 10 0.12
39 23 0.29
40 47 0.59
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTTTTG
Found at i:57733549 original size:41 final size:41
Alignment explanation
Indices: 57733490--57733772 Score: 368
Period size: 41 Copynumber: 6.9 Consensus size: 41
57733480 TGAGTTTTTG
*
57733490 GGGCCTTTAGCGGTGTTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
57733531 GGGCCTTTAACGGCGTTTTTGAAGAAGCGCTGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
57733572 TGGCCTTTAGCGTCGTTTTTGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
**** * * *
57733613 AAATCTTTAGCGGCGTTTTTAAAAAAGCGCCACTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* *
57733654 TGGCCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
** * * *
57733695 GGATCTTTAGCGGCGTTTGTAAAAAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
* * *
57733736 TGGCCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAAT
1 GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAAT
57733773 AATAATAAAA
Statistics
Matches: 206, Mismatches: 36, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 206 1.00
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC
Found at i:57733628 original size:82 final size:82
Alignment explanation
Indices: 57733491--57733772 Score: 429
Period size: 82 Copynumber: 3.4 Consensus size: 82
57733481 GAGTTTTTGG
* ** * * *
57733491 GGCCTTTAGCGGTGTTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAACGGCGTTTTTGAAGA
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTAAAAA
*
57733556 AGCGCTGCTAATGCTCT
66 AGCGCCGCTAATGCTCT
* **
57733573 GGCCTTTAGCGTCGTTTTTGAAGAAGCGCCGCTAATGCTCAAATCTTTAGCGGCGTTTTTAAAAA
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTAAAAA
*
57733638 AGCGCCACTAATGCTCT
66 AGCGCCGCTAATGCTCT
* *
57733655 GGCCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTCGGATCTTTAGCGGCGTTTGTAAAAA
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTAAAAA
57733720 AGCGCCGCTAATGCTCT
66 AGCGCCGCTAATGCTCT
* *
57733737 GGCCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAAT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAAT
57733773 AATAATAAAA
Statistics
Matches: 180, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 180 1.00
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (82 bp):
GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCGGATCTTTAGCGGCGTTTTTAAAAA
AGCGCCGCTAATGCTCT
Found at i:57734475 original size:14 final size:15
Alignment explanation
Indices: 57734449--57734480 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
57734439 AGGTTTATAA
57734449 ATTATGAAATTAGGG
1 ATTATGAAATTAGGG
57734464 ATTATG-AATTAGGG
1 ATTATGAAATTAGGG
57734478 ATT
1 ATT
57734481 CTAATTTAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.38
Consensus pattern (15 bp):
ATTATGAAATTAGGG
Found at i:57734657 original size:7 final size:7
Alignment explanation
Indices: 57734645--57734693 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
57734635 TAAATAATGT
*
57734645 TTAGGGG
1 TTAGGGA
57734652 TTAGGGA
1 TTAGGGA
*
57734659 TTTTGGG-
1 -TTAGGGA
57734666 TT-GGG-
1 TTAGGGA
57734671 TTAGGGA
1 TTAGGGA
57734678 TTAGGGA
1 TTAGGGA
57734685 TTAGGGA
1 TTAGGGA
57734692 TT
1 TT
57734694 CGGGGTCGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
5 5 0.14
6 5 0.14
7 22 0.59
8 5 0.14
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.37
Consensus pattern (7 bp):
TTAGGGA
Found at i:57734689 original size:33 final size:33
Alignment explanation
Indices: 57734645--57734714 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
57734635 TAAATAATGT
* ** *
57734645 TTAGGGGTTAGGGATTTTGGGTTGGGTTAGGGA
1 TTAGGGATTAGGGATTCGGGGTCGGGTTAGGGA
*
57734678 TTAGGGATTAGGGATTCGGGGTCGGGTTAGGGT
1 TTAGGGATTAGGGATTCGGGGTCGGGTTAGGGA
57734711 TTAG
1 TTAG
57734715 AATTTAGATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.16, C:0.03, G:0.47, T:0.34
Consensus pattern (33 bp):
TTAGGGATTAGGGATTCGGGGTCGGGTTAGGGA
Found at i:57739784 original size:13 final size:14
Alignment explanation
Indices: 57739766--57739795 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
57739756 TTTATTTTAG
57739766 TTTTGATTTTAA-A
1 TTTTGATTTTAATA
57739779 TTTTGATTTTAATA
1 TTTTGATTTTAATA
57739793 TTT
1 TTT
57739796 ACGACAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTTGATTTTAATA
Found at i:57740170 original size:43 final size:43
Alignment explanation
Indices: 57740040--57740367 Score: 326
Period size: 43 Copynumber: 7.7 Consensus size: 43
57740030 AATTTTTTTC
* * *
57740040 AAAGGTTATGTT-TTTAGCGGCGTTTTTTGCG-AGAAGCGCCGCT
1 AAAGGTCATGTTCTTTAGCGGCG-TTTGTG-GAAAAAGCGCCGCT
* * * * * ** *
57740083 AAAGGT-TTGATCTATAGTGGCGTCTGT-GACAAAAATGCTGCT
1 AAAGGTCATGTTCTTTAGCGGCGTTTGTGGA-AAAAGCGCCGCT
57740125 AAAGGTCATGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCT
1 AAAGGTCATGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCT
* * * *
57740168 AAAGGTCATGGTCTTTAACGGCGTTTGTGGGAAAAGCACCGCT
1 AAAGGTCATGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCT
** **
57740211 AAAGACCATGGCCTTTAGCGGCGTTTGTGGGAAAAA-CGCCGCT
1 AAAGGTCATGTTCTTTAGCGGCGTTTGT-GGAAAAAGCGCCGCT
* ** *
57740254 AAAGGTCATTGTT-TTCAATGGCGTTTGTGGGAAAAGCGCCGCT
1 AAAGGTCA-TGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCT
* * *
57740297 AAAGGTCATGGTCTTTAGCGGCGTTTGTGGTAAAAGCACCGCT
1 AAAGGTCATGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCT
*
57740340 AAAGGTCTTGTTCTTTAGCGGCGTTTGT
1 AAAGGTCATGTTCTTTAGCGGCGTTTGT
57740368 TTCTAAAAAA
Statistics
Matches: 232, Mismatches: 44, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
40 1 0.00
42 29 0.12
43 192 0.83
44 10 0.04
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (43 bp):
AAAGGTCATGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCT
Found at i:57740280 original size:129 final size:129
Alignment explanation
Indices: 57740113--57740367 Score: 377
Period size: 129 Copynumber: 2.0 Consensus size: 129
57740103 CGTCTGTGAC
* * * *
57740113 AAAAATGCTGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATG
1 AAAAACGCCGCTAAAGGTCATGTTCTTCAACGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATG
57740178 GTCTTTAACGGCGTTTGTGGGAAAAGCACCGCTAAAGACCATGGCCTTTAGCGGCGTTTGTGGG
66 GTCTTTAACGGCGTTTGTGGGAAAAGCACCGCTAAAGACCATGGCCTTTAGCGGCGTTTGTGGG
* *
57740242 AAAAACGCCGCTAAAGGTCATTGTT-TTCAATGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAT
1 AAAAACGCCGCTAAAGGTCA-TGTTCTTCAACGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCAT
* * ** * **
57740306 GGTCTTTAGCGGCGTTTGTGGTAAAAGCACCGCTAAAGGTCTTGTTCTTTAGCGGCGTTTGT
65 GGTCTTTAACGGCGTTTGTGGGAAAAGCACCGCTAAAGACCATGGCCTTTAGCGGCGTTTGT
57740368 TTCTAAAAAA
Statistics
Matches: 112, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
129 108 0.96
130 4 0.04
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.28
Consensus pattern (129 bp):
AAAAACGCCGCTAAAGGTCATGTTCTTCAACGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATG
GTCTTTAACGGCGTTTGTGGGAAAAGCACCGCTAAAGACCATGGCCTTTAGCGGCGTTTGTGGG
Found at i:57740679 original size:2 final size:2
Alignment explanation
Indices: 57740672--57740789 Score: 68
Period size: 2 Copynumber: 61.5 Consensus size: 2
57740662 AAAGATATGA
* * * **
57740672 AT AT AT AT AT GT AT AT AT AT AT GT AT GT AT A- AT ACT CG A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * *
57740713 AT AT AT AT GT AT AT AT AT A- AG AT -T AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
57740753 AT A- AG AT -T AT AT AT AT GT AT AT GT GT AT AG AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
57740790 AGATTTTGAG
Statistics
Matches: 88, Mismatches: 21, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
1 6 0.07
2 81 0.92
3 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (2 bp):
AT
Found at i:57740687 original size:12 final size:12
Alignment explanation
Indices: 57740666--57740774 Score: 114
Period size: 12 Copynumber: 8.8 Consensus size: 12
57740656 TTAGACAAAG
*
57740666 ATATGAATATAT
1 ATATGTATATAT
57740678 ATATGTATATAT
1 ATATGTATATAT
*
57740690 ATATGTATGTAT
1 ATATGTATATAT
*
57740702 AATACTCGAATATAT
1 -ATA-T-GTATATAT
57740717 ATATGTATATAT
1 ATATGTATATAT
*
57740729 ATAAG-ATTATAT
1 ATATGTA-TATAT
57740741 ATATGTATATAT
1 ATATGTATATAT
*
57740753 ATAAG-ATTATAT
1 ATATGTA-TATAT
57740765 ATATGTATAT
1 ATATGTATAT
57740775 GTGTATAGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
11 2 0.02
12 63 0.78
13 6 0.07
14 4 0.05
15 6 0.07
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (12 bp):
ATATGTATATAT
Found at i:57740702 original size:24 final size:23
Alignment explanation
Indices: 57740666--57740789 Score: 122
Period size: 24 Copynumber: 5.0 Consensus size: 23
57740656 TTAGACAAAG
*
57740666 ATATGAATATATATATGTATATAT
1 ATATGTATATATATATG-ATATAT
*
57740690 ATATGTATGTATAATACTCGAATATAT
1 ATATGTATATAT-ATA-T-G-ATATAT
*
57740717 ATATGTATATATATAAGATTATAT
1 ATATGTATATATATATGA-TATAT
*
57740741 ATATGTATATATATAAGATTATAT
1 ATATGTATATATATATGA-TATAT
* *
57740765 ATATGTATATGTGTATAGATATAT
1 ATATGTATATATATAT-GATATAT
57740789 A
1 A
57740790 AGATTTTGAG
Statistics
Matches: 87, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
23 1 0.01
24 59 0.68
25 5 0.06
26 4 0.05
27 18 0.21
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (23 bp):
ATATGTATATATATATGATATAT
Found at i:57741012 original size:18 final size:17
Alignment explanation
Indices: 57740980--57741013 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
57740970 AGTTTCGAAC
57740980 AGTTATATATATATGTG
1 AGTTATATATATATGTG
*
57740997 AGTTATAATTTATATGT
1 AGTTAT-ATATATATGT
57741014 ATATGTTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (17 bp):
AGTTATATATATATGTG
Found at i:57741332 original size:41 final size:41
Alignment explanation
Indices: 57741270--57741390 Score: 188
Period size: 41 Copynumber: 3.0 Consensus size: 41
57741260 TGATCAAACG
* *
57741270 TAATGCAGACTTTACGTCTAGCAGGCTTGATGCTGGTGAAA
1 TAATTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAA
57741311 TAATTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAA
1 TAATTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAA
* * * *
57741352 TAATTCGGACTTTACGTCTAGCAGGTTTAATACCGGTGA
1 TAATTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGA
57741391 CATTTTGGAC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (41 bp):
TAATTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAA
Found at i:57741412 original size:39 final size:40
Alignment explanation
Indices: 57741277--57741413 Score: 132
Period size: 41 Copynumber: 3.4 Consensus size: 40
57741267 ACGTAATGCA
* * * * *
57741277 GACTTTACGTCTAGCAGGCTTGATGCTGGTGAAATAATTCA
1 GACTATACGTCTAGCAGGCTTAATACCGGTGAAAT-ATTCG
* * *
57741318 GACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATAATTCG
1 GACTATACGTCTAGCAGGCTTAATACCGGTGAAAT-ATTCG
* * * *
57741359 GACTTTACGTCTAGCAGGTTTAATACCGGTGACAT-TTTG
1 GACTATACGTCTAGCAGGCTTAATACCGGTGAAATATTCG
*
57741398 GACTATAGGTCTAGCA
1 GACTATACGTCTAGCA
57741414 AGCTAAAAGC
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 17 0.20
41 70 0.80
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (40 bp):
GACTATACGTCTAGCAGGCTTAATACCGGTGAAATATTCG
Found at i:57751013 original size:20 final size:20
Alignment explanation
Indices: 57750977--57751015 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
57750967 TTAGATTACG
57750977 ATAAAATAATTATTTAAAAA
1 ATAAAATAATTATTTAAAAA
*
57750997 ATAAATATATTTA-TTAAAA
1 ATAAA-ATAATTATTTAAAA
57751016 GATCATGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAAATAATTATTTAAAAA
Found at i:57754447 original size:20 final size:21
Alignment explanation
Indices: 57754414--57754461 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
57754404 TAAAACTTCA
*
57754414 TAAAAATTATAAAAATATTTT
1 TAAATATTATAAAAATATTTT
57754435 TAAATATTA-AAAAATATTTT
1 TAAATATTATAAAAATATTTT
*
57754455 TTAATAT
1 TAAATAT
57754462 ACCATATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAATATTATAAAAATATTTT
Found at i:57755153 original size:256 final size:256
Alignment explanation
Indices: 57754661--57755160 Score: 736
Period size: 256 Copynumber: 1.9 Consensus size: 256
57754651 AAGTCGTTTT
* * *
57754661 TTGGCTTCCTCCTCGCCATCTTCATAAATCATTTTAGGGTGGAGCCCTTTCTTTATTAAGTTGGC
1 TTGGCTTCCTCCTCGCCATCTTCATAAATCAGTTTAGGGTGAAGCCCTTTCTTTATGAAGTTGGC
* * * * *
57754726 GAAGAGCGCCAATGTTGTGTTCGTCGTTCTCTGCTCGGACCACCTCGAAAGTCTACCAAAGACCA
66 GAAGAGAGCCAATATTGTGTTCGTCGTTCTCCGCTCGGACCACATCAAAAGTCTA-CAAAGACCA
* *
57754791 TAAGGTAGGTGGTAAAATCATTTTTTAGTTACAGCCGCGTCAGATACCTCACGGCGACAGGAATA
130 TAAGGTAGGTGGTAAAATCATTTTTTAGTTACAACCGCGTCAGATACCTCACAGCGACAGGAATA
57754856 TTTCCTGATTTACACAATGCTTCAAGCAACTCATCTGAAGCAGCAGGACAACCAATAGTACG
195 TTTCCTGATTTACACAATGCTTCAAGCAACTCATCTGAAGCAGCAGGACAACCAATAGTACG
*
57754918 TTGGCTTCCTCCTCGCCATCTTCGTAAAT-AGTTTAGGGTGAAGCCCTTTCTTTATGAAGTTGGC
1 TTGGCTTCCTCCTCGCCATCTTCATAAATCAGTTTAGGGTGAAGCCCTTTCTTTATGAAGTTGGC
**
57754982 GAAGAGAGCCAATATTGTGTTC-TCCGTTCTCCGCTCGGACCACATCAAAAGTTCGT-CAGTGAC
66 GAAGAGAGCCAATATTGTGTTCGT-CGTTCTCCGCTCGGACCACATCAAAAG-TC-TACAAAGAC
* *** * * * *
57755045 CATATGGTAGGTGGTCTCATCATTTTTTAGTTCCAACGGTGTCAGATACCTCACAGCGACATGAA
128 CATAAGGTAGGTGGTAAAATCATTTTTTAGTTACAACCGCGTCAGATACCTCACAGCGACAGGAA
* *
57755110 TATTTCCTGATTTACACAATGCTTCAAGCAACTTATGTGAAGCAGCAGGAC
193 TATTTCCTGATTTACACAATGCTTCAAGCAACTCATCTGAAGCAGCAGGAC
57755161 TACGAAAGAA
Statistics
Matches: 217, Mismatches: 23, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
255 1 0.00
256 185 0.85
257 30 0.14
258 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (256 bp):
TTGGCTTCCTCCTCGCCATCTTCATAAATCAGTTTAGGGTGAAGCCCTTTCTTTATGAAGTTGGC
GAAGAGAGCCAATATTGTGTTCGTCGTTCTCCGCTCGGACCACATCAAAAGTCTACAAAGACCAT
AAGGTAGGTGGTAAAATCATTTTTTAGTTACAACCGCGTCAGATACCTCACAGCGACAGGAATAT
TTCCTGATTTACACAATGCTTCAAGCAACTCATCTGAAGCAGCAGGACAACCAATAGTACG
Found at i:57766711 original size:30 final size:31
Alignment explanation
Indices: 57766677--57766877 Score: 229
Period size: 30 Copynumber: 6.7 Consensus size: 31
57766667 AAAAAATTTG
*
57766677 CATTTTGACCCCTAAACTTTTCT-AAAATCA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
* * *
57766707 CATTTTGACCTCT-AATTTTTTTCAAAATTA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
** *
57766737 CATTTCAACCCCTAAAATTTTCT--AAATTA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
*
57766766 CATTTTGACACCTAAAC-TTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
57766796 CATTTTGACCCCTAAAC-TTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
*
57766826 CATTTTGACCCCTAAAC-TTTCTCGAAATTA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
** *
57766856 TGTTTTG-GCCCTAAAGCTTTTC
1 CATTTTGACCCCTAAA-CTTTTC
57766878 CTACATTTGC
Statistics
Matches: 147, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
28 5 0.03
29 33 0.22
30 98 0.67
31 11 0.07
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (31 bp):
CATTTTGACCCCTAAACTTTTCTCAAAATTA
Found at i:57766781 original size:89 final size:90
Alignment explanation
Indices: 57766677--57766877 Score: 246
Period size: 89 Copynumber: 2.2 Consensus size: 90
57766667 AAAAAATTTG
* ** *
57766677 CATTTTGACCCCTAAACTTTTCT-AAAATCACATTTTGACCTCTAATTTTTTTCAAAATTACATT
1 CATTTTGA-CCCTAAACTTTTCTCAAAATCACATTTTGACCCCTAAACTTTCTCAAAATTACATT
*
57766741 TCAACCCCTAAAATTT-TCTAAATTA
65 TCAACCCCTAAAATTTCTCGAAATTA
*
57766766 CATTTTGACACCTAAAC-TTTCTCAAAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATT
1 CATTTTGAC-CCTAAACTTTTCTCAAAATCACATTTTGACCCCTAAACTTTCTCAAAATTACATT
** *
57766830 TTGACCCCTAAACTTTCTCGAAATTA
65 TCAACCCCTAAAATTTCTCGAAATTA
** *
57766856 TGTTTTGGCCCTAAAGCTTTTC
1 CATTTTGACCCTAAA-CTTTTC
57766878 CTACATTTGC
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
88 6 0.06
89 70 0.74
90 15 0.16
91 4 0.04
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (90 bp):
CATTTTGACCCTAAACTTTTCTCAAAATCACATTTTGACCCCTAAACTTTCTCAAAATTACATTT
CAACCCCTAAAATTTCTCGAAATTA
Found at i:57769857 original size:19 final size:19
Alignment explanation
Indices: 57769833--57769878 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
57769823 AATATTATGC
57769833 CTAAAAAAACAAAAAAAGA
1 CTAAAAAAACAAAAAAAGA
*
57769852 CT-AAAAAACTAAAAAAGA
1 CTAAAAAAACAAAAAAAGA
57769870 -TGAAAAAAA
1 CT-AAAAAAA
57769879 TCAAGATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.04
18 15 0.62
19 8 0.33
ACGTcount: A:0.76, C:0.09, G:0.07, T:0.09
Consensus pattern (19 bp):
CTAAAAAAACAAAAAAAGA
Found at i:57770570 original size:78 final size:78
Alignment explanation
Indices: 57770439--57771138 Score: 1023
Period size: 78 Copynumber: 9.1 Consensus size: 78
57770429 TATTTCGTTA
*
57770439 AGCCTCGGACACATGACGAGGTATTTCGTTTAAATTTCTGTTCTTTTTAAATCAACTCATATTGC
1 AGCCTCGGACACATGCCGAGGTATTTCGTTTAAATTTCTGTTCTTTTTAAATCAACTCATATTGC
57770504 GAGAGGTGAGTTG
66 GAGAGGTGAGTTG
* *
57770517 AACCTCGGACACATGCCGAGGTATTTCGTTTAAATTCCTGTTCTTTTTAAATCAACTCATATTGC
1 AGCCTCGGACACATGCCGAGGTATTTCGTTTAAATTTCTGTTCTTTTTAAATCAACTCATATTGC
57770582 GAGAGGTGAGTTG
66 GAGAGGTGAGTTG
* *
57770595 AGCCTCGGACACATGCCGAGGTATTTCGTTTAAATTTTTGTTCTTTTTAAATCAACTCATAATGC
1 AGCCTCGGACACATGCCGAGGTATTTCGTTTAAATTTCTGTTCTTTTTAAATCAACTCATATTGC
57770660 GAGAGGTGAGTTG
66 GAGAGGTGAGTTG
* *
57770673 AGCCTCGGACACATGCTGAGGTATGTCGTTTAAATTTCTGTTCTTTTTAAATCAACTCATATTGC
1 AGCCTCGGACACATGCCGAGGTATTTCGTTTAAATTTCTGTTCTTTTTAAATCAACTCATATTGC
57770738 GAGAGGTGAGTTG
66 GAGAGGTGAGTTG
* * * **
57770751 AGCCTCGG--TCATGCCGATGTATTTCTTTTAAA------TT-TTTGAAAATCAACTCATATTGC
1 AGCCTCGGACACATGCCGAGGTATTTCGTTTAAATTTCTGTTCTTTTTAAATCAACTCATATTGC
*
57770807 GAGAGGTGAGTTA
66 GAGAGGTGAGTTG
*
57770820 AGCCTCGGACACATGCCGAGGTATTTCGTTTACATTTCTGTTCTTTTTAAATCAACTCATATTGC
1 AGCCTCGGACACATGCCGAGGTATTTCGTTTAAATTTCTGTTCTTTTTAAATCAACTCATATTGC
57770885 GAGAGGTGAGTTG
66 GAGAGGTGAGTTG
57770898 AGCCTCGGACACATGCCGAGGTATTTCGTTTAAATTTCTGTTCTTTTTAAATCAACTCATATTGC
1 AGCCTCGGACACATGCCGAGGTATTTCGTTTAAATTTCTGTTCTTTTTAAATCAACTCATATTGC
57770963 GAGAGGTGAGTTG
66 GAGAGGTGAGTTG
* * * *
57770976 AACCTCAGACACATGCCGAGGTATTTCGTTTAAATTT-T-TGCTTTTCAAAAATCAACTCATATT
1 AGCCTCGGACACATGCCGAGGTATTTCGTTTAAATTTCTGTTCTTTT--TAAATCAACTCATATT
*
57771039 GCGAGAAGTGAGTTG
64 GCGAGAGGTGAGTTG
* * * * ** *
57771054 AGCCTCAGGTCACATGCCGGGGTA--TCTTTTCAATTTCTGTT-TTTCAAAAATCAACTCATAAT
1 AGCCTC-GGACACATGCCGAGGTATTTCGTTTAAATTTCTGTTCTTT-TTAAATCAACTCATATT
*
57771116 GCTAGAGGTGAGTTG
64 GCGAGAGGTGAGTTG
57771131 AGCCTCGG
1 AGCCTCGG
57771139 GCCACACGCG
Statistics
Matches: 564, Mismatches: 43, Indels: 32
0.88 0.07 0.05
Matches are distributed among these distances:
69 40 0.07
70 2 0.00
71 20 0.04
76 27 0.05
77 47 0.08
78 413 0.73
79 15 0.03
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (78 bp):
AGCCTCGGACACATGCCGAGGTATTTCGTTTAAATTTCTGTTCTTTTTAAATCAACTCATATTGC
GAGAGGTGAGTTG
Found at i:57771034 original size:303 final size:304
Alignment explanation
Indices: 57770487--57771065 Score: 1004
Period size: 303 Copynumber: 1.9 Consensus size: 304
57770477 TGTTCTTTTT
57770487 AAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGACACATGCCGAGGTATTTCGTTTAAAT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGACACATGCCGAGGTATTTCGTTTAAAT
57770552 TCCTGTTCTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGT
66 TCCTGTTCTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGT
* * *
57770617 ATTTCGTTTAAATTTTTGTTCTTTTTAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGA
131 ATTTCGTTTAAATTTCTGTTCTTTTTAAATCAACTCATAATGCGAGAGGTGAGTTGAACCTCAGA
* * * *
57770682 CACATGCTGAGGTATGTCGTTTAAATTTCTGTTCTTTTTAAATCAACTCATATTGCGAGAGGTGA
196 CACATGCCGAGGTATGTCGTTTAAATTTCTGTGCTTTTAAAATCAACTCATATTGCGAGAAGTGA
57770747 GTTGAGCCTC-GGTCATGCCGATGTATTTCTTTTAAATTTTTGA
261 GTTGAGCCTCAGGTCATGCCGATGTATTTCTTTTAAATTTTTGA
*
57770790 AAATCAACTCATATTGCGAGAGGTGAGTT-AAGCCTCGGACACATGCCGAGGTATTTCGTTTACA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAA-CCTCGGACACATGCCGAGGTATTTCGTTTAAA
*
57770854 TTTCTGTTCTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGG
65 TTCCTGTTCTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGG
*
57770919 TATTTCGTTTAAATTTCTGTTCTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAG
130 TATTTCGTTTAAATTTCTGTTCTTTTTAAATCAACTCATAATGCGAGAGGTGAGTTGAACCTCAG
*
57770984 ACACATGCCGAGGTATTTCGTTTAAATTT-T-TGCTTTTCAAAAATCAACTCATATTGCGAGAAG
195 ACACATGCCGAGGTATGTCGTTTAAATTTCTGTGCTTTT--AAAATCAACTCATATTGCGAGAAG
57771047 TGAGTTGAGCCTCAGGTCA
258 TGAGTTGAGCCTCAGGTCA
57771066 CATGCCGGGG
Statistics
Matches: 261, Mismatches: 11, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
301 6 0.02
302 3 0.01
303 247 0.95
304 5 0.02
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (304 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCGGACACATGCCGAGGTATTTCGTTTAAAT
TCCTGTTCTTTTTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACATGCCGAGGT
ATTTCGTTTAAATTTCTGTTCTTTTTAAATCAACTCATAATGCGAGAGGTGAGTTGAACCTCAGA
CACATGCCGAGGTATGTCGTTTAAATTTCTGTGCTTTTAAAATCAACTCATATTGCGAGAAGTGA
GTTGAGCCTCAGGTCATGCCGATGTATTTCTTTTAAATTTTTGA
Found at i:57771374 original size:30 final size:31
Alignment explanation
Indices: 57771340--57771489 Score: 166
Period size: 30 Copynumber: 5.0 Consensus size: 31
57771330 AAAATATTTG
* * *
57771340 CATTTTGACCCTTGAACTTTTCT-AAAATCA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
* ** * *
57771370 CATTTTGACCTCTAATTTTTTTTCAAAAGTA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
**
57771401 CATTTCAACCCCTAAACTTTTCT--AAATTA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
57771430 CATTTTGACCCCTAAAC-TTTCTCAAAATTA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
*
57771460 CATTTTGACCCCTAAAC-TTTCTCGAAATTA
1 CATTTTGACCCCTAAACTTTTCTCAAAATTA
57771490 TGTTTTGGCC
Statistics
Matches: 99, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
28 5 0.05
29 20 0.20
30 52 0.53
31 22 0.22
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (31 bp):
CATTTTGACCCCTAAACTTTTCTCAAAATTA
Found at i:57771439 original size:60 final size:59
Alignment explanation
Indices: 57771354--57771489 Score: 164
Period size: 59 Copynumber: 2.3 Consensus size: 59
57771344 TTGACCCTTG
* * ** *
57771354 AACTTTTCTAAAATCACATTTTGACCTCTAATTTTTTTTCAAAAGTACATTTCAACCCCTA
1 AACTTTTCT-AAATTACATTTTGACCCCTAA-ACTTTCTCAAAAGTACATTTCAACCCCTA
* **
57771415 AACTTTTCTAAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATTTTGACCCCTA
1 AACTTTTCTAAATTACATTTTGACCCCTAAACTTTCTCAAAAGTACATTTCAACCCCTA
*
57771474 AACTTTCTCGAAATTA
1 AACTTT-TCTAAATTA
57771490 TGTTTTGGCC
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
59 29 0.45
60 27 0.42
61 9 0.14
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.40
Consensus pattern (59 bp):
AACTTTTCTAAATTACATTTTGACCCCTAAACTTTCTCAAAAGTACATTTCAACCCCTA
Found at i:57771866 original size:13 final size:13
Alignment explanation
Indices: 57771845--57771913 Score: 65
Period size: 13 Copynumber: 5.5 Consensus size: 13
57771835 GGCCAAACGG
*
57771845 AGAAGAAGAGAAA
1 AGAAAAAGAGAAA
57771858 AGAAAAAGAG-AA
1 AGAAAAAGAGAAA
*
57771870 AGAAAGA-AG-AA
1 AGAAAAAGAGAAA
*
57771881 AGAAAAAGAAAAA
1 AGAAAAAGAGAAA
*
57771894 AGAGAAAGA-AAA
1 AGAAAAAGAGAAA
57771906 GAGAAAAA
1 -AGAAAAA
57771914 AATTAAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
11 10 0.21
12 12 0.26
13 25 0.53
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (13 bp):
AGAAAAAGAGAAA
Found at i:57771882 original size:17 final size:17
Alignment explanation
Indices: 57771856--57771911 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 17
57771846 GAAGAAGAGA
*
57771856 AAAGAA-AAAGAGAAAG
1 AAAGAAGAAAGAAAAAG
57771872 AAAGAAGAAAGAAAAAG
1 AAAGAAGAAAGAAAAAG
*
57771889 AAAAAAGAGAAAGAAAAGAG
1 -AAAGA-AGAAAGAAAA-AG
57771909 AAA
1 AAA
57771912 AAAATTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 6 0.18
17 9 0.26
18 4 0.12
19 13 0.38
20 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
AAAGAAGAAAGAAAAAG
Found at i:57771910 original size:7 final size:7
Alignment explanation
Indices: 57771844--57771912 Score: 56
Period size: 7 Copynumber: 10.0 Consensus size: 7
57771834 AGGCCAAACG
57771844 GAGAAGAA
1 GAGAA-AA
57771852 GAGAAAA
1 GAGAAAA
57771859 GA-AAAA
1 GAGAAAA
57771865 GAGAAAGA
1 GAGAAA-A
*
57771873 AAGAAGAA
1 GAGAA-AA
57771881 -AGAAAA
1 GAGAAAA
57771887 -AGAAAA
1 GAGAAAA
* *
57771893 AAGAGAA
1 GAGAAAA
57771900 -AGAAAA
1 GAGAAAA
57771906 GAGAAAA
1 GAGAAAA
57771913 AAATTAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
6 19 0.36
7 22 0.42
8 11 0.21
9 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
GAGAAAA
Found at i:57771911 original size:30 final size:29
Alignment explanation
Indices: 57771845--57771904 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 29
57771835 GGCCAAACGG
57771845 AGAAG-AAGAGAAAAGAAAAAGAGAAAGAA
1 AGAAGAAAGA-AAAAGAAAAAGAGAAAGAA
57771874 AGAAGAAAGAAAAAGAAAAAAGAGAAAGAA
1 AGAAGAAAGAAAAAG-AAAAAGAGAAAGAA
57771904 A
1 A
57771905 AGAGAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (29 bp):
AGAAGAAAGAAAAAGAAAAAGAGAAAGAA
Found at i:57771912 original size:19 final size:20
Alignment explanation
Indices: 57771850--57771914 Score: 87
Period size: 20 Copynumber: 3.1 Consensus size: 20
57771840 AACGGAGAAG
57771850 AAGAGAAAAGAAAAAGAGAAAGA
1 AAGAG-AAAG-AAAAGAGAAA-A
57771873 AAGAAGAAAGAAAA-AGAAAA
1 AAG-AGAAAGAAAAGAGAAAA
57771893 AAGAGAAAGAAAAGAGAAAA
1 AAGAGAAAGAAAAGAGAAAA
57771913 AA
1 AA
57771915 ATTAAAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.25
20 12 0.30
21 5 0.12
22 4 0.10
23 7 0.17
24 2 0.05
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (20 bp):
AAGAGAAAGAAAAGAGAAAA
Found at i:57771915 original size:23 final size:24
Alignment explanation
Indices: 57771845--57771915 Score: 72
Period size: 30 Copynumber: 2.7 Consensus size: 24
57771835 GGCCAAACGG
57771845 AGAAGAAGAGAAAAGAAAAAGAGAA
1 AGAAGAAGAGAAAA-AAAAAGAGAA
57771870 AGAAAGAAGAAAGAAAAAGAAAAAAGAGAA
1 AG-AAGAAG--AG--AAA-AAAAAAGAGAA
57771900 AGAA-AAGAGAAAAAAA
1 AGAAGAAGAGAAAAAAA
57771916 TTAAAAATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
23 4 0.10
24 3 0.08
25 2 0.05
26 8 0.20
28 5 0.12
29 2 0.05
30 15 0.38
31 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (24 bp):
AGAAGAAGAGAAAAAAAAAGAGAA
Found at i:57772236 original size:22 final size:22
Alignment explanation
Indices: 57772208--57772295 Score: 126
Period size: 22 Copynumber: 4.0 Consensus size: 22
57772198 CCAGCCCAGC
57772208 AGAGAGAAAAAAAAAGAAAAAA
1 AGAGAGAAAAAAAAAGAAAAAA
57772230 AGAGAGAAAAAAAAAGAAAAAA
1 AGAGAGAAAAAAAAAGAAAAAA
*
57772252 GAGAGAAAAAATAAAAAGAAAAAA
1 -AGAGAGAAAA-AAAAAGAAAAAA
*
57772276 A-AGAGAAAAAATAA-AAAAAA
1 AGAGAGAAAAAAAAAGAAAAAA
57772296 GGGGGATTCA
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.10
21 4 0.07
22 29 0.48
23 10 0.16
24 12 0.20
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (22 bp):
AGAGAGAAAAAAAAAGAAAAAA
Found at i:57772241 original size:19 final size:20
Alignment explanation
Indices: 57772208--57772296 Score: 97
Period size: 21 Copynumber: 4.1 Consensus size: 20
57772198 CCAGCCCAGC
57772208 AGAGAGAAAAAAAAAGAAAAAA
1 AGAGAG-AAAAAAAA-AAAAAA
57772230 AGAGAGAAAAAAAAAGAAAAA
1 AGAGAGAAAAAAAAA-AAAAA
57772251 AGAGAGAAAAAATAAAAAGAAAAA
1 AGAGAG--AAAA-AAAAA-AAAAA
* *
57772275 AAAGAGAAAAAATAAAAAAA
1 AGAGAGAAAAAAAAAAAAAA
57772295 AG
1 AG
57772297 GGGGATTCAA
Statistics
Matches: 60, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.12
21 23 0.38
22 10 0.17
23 4 0.07
24 16 0.27
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (20 bp):
AGAGAGAAAAAAAAAAAAAA
Found at i:57772241 original size:24 final size:25
Alignment explanation
Indices: 57772208--57772292 Score: 119
Period size: 24 Copynumber: 3.6 Consensus size: 25
57772198 CCAGCCCAGC
*
57772208 AGAGAGAAAA-AAAAAGAAAAAAAG
1 AGAGAAAAAATAAAAAGAAAAAAAG
57772232 AGAG--AAAA-AAAAAG-AAAAAAG
1 AGAGAAAAAATAAAAAGAAAAAAAG
57772253 AGAGAAAAAATAAAAAGAAAAAAA-
1 AGAGAAAAAATAAAAAGAAAAAAAG
57772277 AGAGAAAAAATAAAAA
1 AGAGAAAAAATAAAAA
57772293 AAAGGGGGAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
21 11 0.19
22 10 0.18
23 4 0.07
24 26 0.46
25 6 0.11
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.02
Consensus pattern (25 bp):
AGAGAAAAAATAAAAAGAAAAAAAG
Found at i:57772687 original size:21 final size:20
Alignment explanation
Indices: 57772643--57772686 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
57772633 TCTATTTTTC
*
57772643 AAAATTTTTCGTGTCTTCAA
1 AAAATTTTTCATGTCTTCAA
57772663 AAAATTTTCTCATGT-TTCAA
1 AAAATTTT-TCATGTCTTCAA
57772683 AAAA
1 AAAA
57772687 AATATATTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.41
Consensus pattern (20 bp):
AAAATTTTTCATGTCTTCAA
Found at i:57772941 original size:41 final size:41
Alignment explanation
Indices: 57772879--57772965 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 41
57772869 AAAATAAAAT
* * * *
57772879 AAAAAAAAAAGATTTCGTTTTTCCAAA-TTCTCATGTTTTC
1 AAAAAAAAAAAAATTCATTTTTCAAAATTTCTCATGTTTTC
* *
57772919 AAAAAAAAAAAAATTCTATTTTTCAAAATTTTTCGTGTTTTC
1 AAAAAAAAAAAAATTC-ATTTTTCAAAATTTCTCATGTTTTC
57772961 AAAAA
1 AAAAA
57772966 TTTCTTGTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 14 0.36
41 9 0.23
42 16 0.41
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (41 bp):
AAAAAAAAAAAAATTCATTTTTCAAAATTTCTCATGTTTTC
Found at i:57772959 original size:18 final size:18
Alignment explanation
Indices: 57772938--57773367 Score: 244
Period size: 17 Copynumber: 23.7 Consensus size: 18
57772928 AAAATTCTAT
*
57772938 TTTTCAAAATTTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
57772956 TTTTCAAAAA-TTTCTTG
1 TTTTCAAAAATTTTCGTG
*
57772973 TGTTTCAAAAAATCTTCGTG
1 T-TTTC-AAAAATTTTCGTG
*
57772993 TTTTC-AAGA-TTTCG-G
1 TTTTCAAAAATTTTCGTG
*
57773008 TGTTTCAAAAATTTTCATG
1 T-TTTCAAAAATTTTCGTG
*
57773027 GTTTCAAAAAAAAATTTCTCGTG
1 TTTTC----AAAAATTT-TCGTG
* * *
57773050 TTTT-AAACATTTTTGCG
1 TTTTCAAAAATTTTCGTG
* *
57773067 TCTT-AAAATTTTTCGTG
1 TTTTCAAAAATTTTCGTG
* *
57773084 TTTTCAAAAAAAATCTTCGTA
1 TTTTC---AAAAATTTTCGTG
*
57773105 TTTTCAAAAAAATTTCGTG
1 TTTTC-AAAAATTTTCGTG
**
57773124 -TTTCAAAAATCCTCGTG
1 TTTTCAAAAATTTTCGTG
57773141 TTTTCAAAAA-TTTCG-G
1 TTTTCAAAAATTTTCGTG
* *
57773157 TGTTTCAAATATTTTTGTG
1 T-TTTCAAAAATTTTCGTG
* *
57773176 TTTTCAAAAATTCTGGTG
1 TTTTCAAAAATTTTCGTG
* **
57773194 ATTTTAAAAAAAAATT-GTG
1 -TTTT-CAAAAATTTTCGTG
57773213 TTTTCTAAAAAATTTTCGTG
1 TTTTC--AAAAATTTTCGTG
*
57773233 -TTTCAAAAATTTTCATG
1 TTTTCAAAAATTTTCGTG
**
57773250 TTTTCAAAAAATTCCCGT-
1 TTTTC-AAAAATTTTCGTG
* * *
57773268 ATTTCACAAATGTTCGTG
1 TTTTCAAAAATTTTCGTG
*
57773286 TTTTGAAAAATTTATC--G
1 TTTTCAAAAATTT-TCGTG
* *
57773303 TTTTCAAAAACTGTCGTG
1 TTTTCAAAAATTTTCGTG
* **
57773321 TTTTAAAAAAAATTCGTG
1 TTTTCAAAAATTTTCGTG
* *
57773339 -TTTCTAAAATTTTTGTG
1 TTTTCAAAAATTTTCGTG
57773356 -TTTCAAAAATTT
1 TTTTCAAAAATTT
57773368 CGTTTTTTTT
Statistics
Matches: 312, Mismatches: 69, Indels: 63
0.70 0.16 0.14
Matches are distributed among these distances:
15 2 0.01
16 12 0.04
17 106 0.34
18 95 0.30
19 52 0.17
20 15 0.05
21 15 0.05
22 8 0.03
23 7 0.02
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (18 bp):
TTTTCAAAAATTTTCGTG
Found at i:57773115 original size:19 final size:18
Alignment explanation
Indices: 57773091--57773150 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
57773081 GTGTTTTCAA
57773091 AAAAAATCTTCGTATTTTC
1 AAAAAATCTTCGT-TTTTC
*
57773110 AAAAAAAT-TTCGTGTTTC
1 -AAAAAATCTTCGTTTTTC
*
57773128 -AAAAATCCTCGTGTTTTC
1 AAAAAATCTTCGT-TTTTC
57773146 AAAAA
1 AAAAA
57773151 TTTCGGTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 6 0.18
17 4 0.12
18 8 0.24
19 9 0.26
20 7 0.21
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (18 bp):
AAAAAATCTTCGTTTTTC
Found at i:57773131 original size:17 final size:17
Alignment explanation
Indices: 57772939--57773370 Score: 157
Period size: 18 Copynumber: 23.9 Consensus size: 17
57772929 AAATTCTATT
**
57772939 TTTCAAAATTTTTCGTG
1 TTTCAAAAAATTTCGTG
57772956 TTTTC-AAAAATTTCTTGTG
1 -TTTCAAAAAATTTC--GTG
57772975 TTTCAAAAAATCTTCGTG
1 TTTCAAAAAAT-TTCGTG
*
57772993 TTTTC--AAGATTTCGGTG
1 -TTTCAAAAAATTTC-GTG
* *
57773010 TTTCAAAAATTTTCATGG
1 TTTCAAAAAATTTCGT-G
57773028 TTTCAAAAAAAAATTTCTCGTG
1 TTTC---AAAAAA-TT-TCGTG
* * * * *
57773050 TTTTAAACATTTTTGCG
1 TTTCAAAAAATTTCGTG
**
57773067 TCTT-AAAATTTTTCGTG
1 T-TTCAAAAAATTTCGTG
*
57773084 TTTTCAAAAAAAATCTTCGTAT
1 -TTTC--AAAAAAT-TTCGT-G
57773106 TTTCAAAAAAATTTCGTG
1 TTTC-AAAAAATTTCGTG
*
57773124 TTTC-AAAAATCCTCGTG
1 TTTCAAAAAAT-TTCGTG
57773141 TTTTC-AAAAATTTCGGTG
1 -TTTCAAAAAATTTC-GTG
* * *
57773159 TTTCAAATATTTTTGTG
1 TTTCAAAAAATTTCGTG
*
57773176 TTTTC-AAAAATTCTGGTG
1 -TTTCAAAAAATT-TCGTG
* *
57773194 ATTTTAAAAAAAAATT-GTG
1 --TTT-CAAAAAATTTCGTG
57773213 TTTTCTAAAAAATTTTCGTG
1 -TTTC-AAAAAA-TTTCGTG
* *
57773233 TTTCAAAAATTTTCATG
1 TTTCAAAAAATTTCGTG
* *
57773250 TTTTCAAAAAATTCCCGTA
1 -TTTCAAAAAATT-TCGTG
*
57773269 TTTC-ACAAATGTTCGTG
1 TTTCAAAAAAT-TTCGTG
* *
57773286 TTTTGAAAAATTTATCGT-
1 -TTTCAAAAAATT-TCGTG
* *
57773304 TTTCAAAAACTGTCGTG
1 TTTCAAAAAATTTCGTG
* *
57773321 TTTTAAAAAAAATTCGTG
1 -TTTCAAAAAATTTCGTG
* * *
57773339 TTTCTAAAATTTTTGTG
1 TTTCAAAAAATTTCGTG
57773356 TTTC-AAAAATTTCGT
1 TTTCAAAAAATTTCGT
57773371 TTTTTTTTAA
Statistics
Matches: 314, Mismatches: 59, Indels: 84
0.69 0.13 0.18
Matches are distributed among these distances:
16 26 0.08
17 88 0.28
18 106 0.34
19 45 0.14
20 20 0.06
21 20 0.06
22 6 0.02
23 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.45
Consensus pattern (17 bp):
TTTCAAAAAATTTCGTG
Found at i:57773173 original size:109 final size:110
Alignment explanation
Indices: 57773036--57773273 Score: 268
Period size: 109 Copynumber: 2.2 Consensus size: 110
57773026 GGTTTCAAAA
* * * *
57773036 AAAAATTTCTCGTGTTTTAAACATTTTTGCGTCTT-AAAATTTTTCGTG-TTTTCAAAAAAAATC
1 AAAAATTTCTCGTGTTTCAAACATTTTTGCGTCTTCAAAAATTCTCGTGATTTT-AAAAAAAA-A
*
57773099 TTCGTATTTTC-AAAAAAATTTCGTGTTTCAAAAATCCTCGTGTTTTC
64 TT-GTATTTTCTAAAAAAATTTCGTGTTTCAAAAATCCTCATGTTTTC
* * * * *
57773146 AAAAATTTC-GGTGTTTCAAATATTTTTGTGTTTTCAAAAATTCTGGTGATTTTAAAAAAAAATT
1 AAAAATTTCTCGTGTTTCAAACATTTTTGCGTCTTCAAAAATTCTCGTGATTTTAAAAAAAAATT
* * **
57773210 GTGTTTTCTAAAAAATTTTCGTGTTTCAAAAATTTTCATGTTTTC
66 GTATTTTCTAAAAAAATTTCGTGTTTCAAAAATCCTCATGTTTTC
* * *
57773255 AAAAAATTCCCGTATTTCA
1 AAAAATTTCTCGTGTTTCA
57773274 CAAATGTTCG
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
108 7 0.07
109 62 0.58
110 34 0.32
111 4 0.04
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.45
Consensus pattern (110 bp):
AAAAATTTCTCGTGTTTCAAACATTTTTGCGTCTTCAAAAATTCTCGTGATTTTAAAAAAAAATT
GTATTTTCTAAAAAAATTTCGTGTTTCAAAAATCCTCATGTTTTC
Found at i:57773408 original size:30 final size:31
Alignment explanation
Indices: 57773350--57773418 Score: 106
Period size: 32 Copynumber: 2.3 Consensus size: 31
57773340 TTCTAAAATT
*
57773350 TTTGTGTTTCAAAAATTTCGTTTTTTTTTAAA
1 TTTGTGCTTCAAAAATTTCG-TTTTTTTTAAA
57773382 TTTGTGCTTCAAAAATTTCG-TTTTTTTAAA
1 TTTGTGCTTCAAAAATTTCGTTTTTTTTAAA
57773412 -TTGTGCT
1 TTTGTGCT
57773419 CCAATATTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
29 7 0.19
30 10 0.28
32 19 0.53
ACGTcount: A:0.23, C:0.09, G:0.12, T:0.57
Consensus pattern (31 bp):
TTTGTGCTTCAAAAATTTCGTTTTTTTTAAA
Found at i:57775206 original size:20 final size:20
Alignment explanation
Indices: 57775159--57775207 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
57775149 AATTTAGTAC
* * *
57775159 TTTAATAAATAATAATTATA
1 TTTATTAAAAAATAAATATA
57775179 -TTATTTAAAAAATAAATATA
1 TTTA-TTAAAAAATAAATATA
57775199 TTTATTAAA
1 TTTATTAAA
57775208 GAAACTATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 3 0.12
20 18 0.75
21 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTATTAAAAAATAAATATA
Found at i:57781433 original size:14 final size:15
Alignment explanation
Indices: 57781394--57781434 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
57781384 TAAAATCAAA
57781394 CCCAAATACCCCTAG
1 CCCAAATACCCCTAG
*
57781409 CCCAAATACCCTTAG
1 CCCAAATACCCCTAG
57781424 CCCAAA-ACCCC
1 CCCAAATACCCC
57781435 AAACAGAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.34, C:0.49, G:0.05, T:0.12
Consensus pattern (15 bp):
CCCAAATACCCCTAG
Done.