Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold247
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: 4737410
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 28 of 29
Found at i:4395641 original size:21 final size:21
Alignment explanation
Indices: 4395615--4395670 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
4395605 TGTTGGGACT
*
4395615 ATGTATCGATACATGAAAGGC
1 ATGTATCAATACATGAAAGGC
4395636 ATGTATCAATACATGAAAGGC
1 ATGTATCAATACATGAAAGGC
4395657 ATGTATCAATACAT
1 ATGTATCAATACAT
4395671 CTAGGCAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (21 bp):
ATGTATCAATACATGAAAGGC
Found at i:4399595 original size:12 final size:12
Alignment explanation
Indices: 4399578--4399602 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4399568 ATATTAAACA
4399578 AAAAATAATAAT
1 AAAAATAATAAT
4399590 AAAAATAATAAT
1 AAAAATAATAAT
4399602 A
1 A
4399603 TCCCCCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATAATAAT
Found at i:4400474 original size:19 final size:18
Alignment explanation
Indices: 4400450--4400490 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
4400440 GCTTTTATCC
*
4400450 TTTTTTATTATTTTATTAT
1 TTTTTTATGATTTTATT-T
*
4400469 TTTTTTATGCTTTTATTT
1 TTTTTTATGATTTTATTT
4400487 TTTT
1 TTTT
4400491 AATTAATTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTTTATGATTTTATTT
Found at i:4401384 original size:65 final size:65
Alignment explanation
Indices: 4401203--4401596 Score: 341
Period size: 65 Copynumber: 6.1 Consensus size: 65
4401193 TTCAAATATC
* * * * * * * * **
4401203 CCTTTTCGATTTAGGTTTCATCCTAGTTACTTTTAGTTGATTGTATTGGTTTAGCCCAGGTCAA-
1 CCTTTTTGACTTAGGTTTCACCCTAGTCACCTTTAGTTGATTATACTAGTTTAGCCTTGGTCAAT
* * * * * * * * *
4401267 CCTTTTTGACTTGGGTTTCATCTTAGCCACCATTATTTGACTGTACTAGTTTAGCCTTGGCCAAT
1 CCTTTTTGACTTAGGTTTCACCCTAGTCACCTTTAGTTGATTATACTAGTTTAGCCTTGGTCAAT
** * * * * *
4401332 ATTTTTTGACTTAGGTTTCACCCTAATCACCTTTAGTTGATTATAATGGTTTAGCCTTGGTTAAC
1 CCTTTTTGACTTAGGTTTCACCCTAGTCACCTTTAGTTGATTATACTAGTTTAGCCTTGGTCAAT
* * * * *
4401397 CCTTTTTGACTTAGGTTTTC-TCCTAGTCACCTTTAGTTAATTGTACTAGTTTAGCCCTGGCCAA
1 CCTTTTTGACTTAGG-TTTCACCCTAGTCACCTTTAGTTGATTATACTAGTTTAGCCTTGGTCAA
4401461 -
65 T
* * * * * *
4401461 CTTTTTTAGACCTAGGTTT-ACTCATAGTCACCTTTAGTTGATTGTACTAGTTTAGCCCTAGTCA
1 CCTTTTT-GACTTAGGTTTCAC-CCTAGTCACCTTTAGTTGATTATACTAGTTTAGCCTTGGTCA
*
4401525 AC
64 AT
* * *
4401527 CCTTTTT-A-TGTAGGTTTCATCCTAGTCACTTTTAGTTGACTATACTAGTTTAGCCTTGGTCAA
1 CCTTTTTGACT-TAGGTTTCACCCTAGTCACCTTTAGTTGATTATACTAGTTTAGCCTTGGTCAA
4401590 T
65 T
4401591 CCTTTT
1 CCTTTT
4401597 CAACTTACAC
Statistics
Matches: 263, Mismatches: 59, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
64 109 0.41
65 144 0.55
66 10 0.04
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (65 bp):
CCTTTTTGACTTAGGTTTCACCCTAGTCACCTTTAGTTGATTATACTAGTTTAGCCTTGGTCAAT
Found at i:4401451 original size:130 final size:129
Alignment explanation
Indices: 4401213--4401590 Score: 442
Period size: 130 Copynumber: 2.9 Consensus size: 129
4401203 CCTTTTCGAT
* * * * *
4401213 TTAGGTTTCATCCTAGTTACTTTTAGTTGATTGTATTGGTTTAGCCCAGGTCAA-CCTTTTTGAC
1 TTAGGTTTCACCCTAGTCACCTTTAGTTGATTGTAATGGTTTAGCCCTGGTCAACCCTTTTTGAC
* * * * * *
4401277 TTGGGTTTCATCTTAGCCACCATTATTTGACTGTACTAGTTTAGCCTTGGCCAATATTTTTTGAC
66 TTAGGTTTCATCCTAGTCACCTTTAGTTGACTGTACTAGTTTAGCCTTGGCCAAT-TTTTTAGAC
* * * *
4401342 TTAGGTTTCACCCTAATCACCTTTAGTTGATTATAATGGTTTAGCCTTGGTTAACCCTTTTTGAC
1 TTAGGTTTCACCCTAGTCACCTTTAGTTGATTGTAATGGTTTAGCCCTGGTCAACCCTTTTTGAC
* * *
4401407 TTAGGTTTTC-TCCTAGTCACCTTTAGTTAATTGTACTAGTTTAGCCCTGGCCAACTTTTTTAGA
66 TTAGG-TTTCATCCTAGTCACCTTTAGTTGACTGTACTAGTTTAGCCTTGGCCAA-TTTTTTAGA
4401471 C
129 C
* * * * *
4401472 CTAGGTTT-ACTCATAGTCACCTTTAGTTGATTGTACTAGTTTAGCCCTAGTCAACCCTTTTT-A
1 TTAGGTTTCAC-CCTAGTCACCTTTAGTTGATTGTAATGGTTTAGCCCTGGTCAACCCTTTTTGA
* * *
4401535 -TGTAGGTTTCATCCTAGTCACTTTTAGTTGACTATACTAGTTTAGCCTTGGTCAAT
65 CT-TAGGTTTCATCCTAGTCACCTTTAGTTGACTGTACTAGTTTAGCCTTGGCCAAT
4401591 CCTTTTCAAC
Statistics
Matches: 210, Mismatches: 33, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
128 6 0.03
129 90 0.43
130 109 0.52
131 5 0.02
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.43
Consensus pattern (129 bp):
TTAGGTTTCACCCTAGTCACCTTTAGTTGATTGTAATGGTTTAGCCCTGGTCAACCCTTTTTGAC
TTAGGTTTCATCCTAGTCACCTTTAGTTGACTGTACTAGTTTAGCCTTGGCCAATTTTTTAGAC
Found at i:4401523 original size:34 final size:33
Alignment explanation
Indices: 4401418--4401524 Score: 89
Period size: 34 Copynumber: 3.2 Consensus size: 33
4401408 TAGGTTTTCT
4401418 CCTAGTCACCTTTAGTTAATTGTACTAGTTTAGC
1 CCTAGTCACCTTTAGTT-ATTGTACTAGTTTAGC
* * * *
4401452 CCTGGCCAACTTT--TT-TAG-ACCTAGGTTTA-C
1 CCTAGTCACCTTTAGTTATTGTA-CTA-GTTTAGC
*
4401482 TCATAGTCACCTTTAGTTGATTGTACTAGTTTAGC
1 -CCTAGTCACCTTTAGTT-ATTGTACTAGTTTAGC
4401517 CCTAGTCA
1 CCTAGTCA
4401525 ACCCTTTTTA
Statistics
Matches: 54, Mismatches: 10, Indels: 18
0.66 0.12 0.22
Matches are distributed among these distances:
29 1 0.02
30 6 0.11
31 14 0.26
32 2 0.04
33 2 0.04
34 22 0.41
35 6 0.11
36 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.39
Consensus pattern (33 bp):
CCTAGTCACCTTTAGTTATTGTACTAGTTTAGC
Found at i:4401543 original size:194 final size:194
Alignment explanation
Indices: 4401202--4401603 Score: 452
Period size: 194 Copynumber: 2.1 Consensus size: 194
4401192 TTTCAAATAT
* * * * * * *
4401202 CCCTTTTCGATTTAGGTTTCATCCTAGTTACTTTTAGTTGATTGTATTGGTTTAGCCCAGGTCAA
1 CCCTTTTCGACTTAGGTTTCATCCTAGTCACCTTTAGTTAATTGTACTAGTTTAGCCCAGGCCAA
* * * * * * *
4401267 CCTTTTTGACTTGGGTTTCATCTTAGCCACCATTATTTGACTGTACTAGTTTAGCCTTGGCCAAT
66 CCTTTTTGACCTAGGTTTCATCATAGCCACCATTAGTTGACTGTACTAGTTTAGCCCTAGCCAAC
* * * *
4401332 ATTTTTTGACTTAGGTTTCACCCTAATCACCTTTAGTTGATTATAATGGTTTAGCCTTGGTTAA
131 ACTTTTTGACTTAGGTTTCACCCTAATCACCTTTAGTTGACTATAATAGTTTAGCCTTGGTCAA
* *
4401396 CCCTTTTTGACTTAGGTTTTC-TCCTAGTCACCTTTAGTTAATTGTACTAGTTTAGCCCTGGCCA
1 CCCTTTTCGACTTAGG-TTTCATCCTAGTCACCTTTAGTTAATTGTACTAGTTTAGCCCAGGCCA
* * * * *
4401460 ACTTTTTTAGACCTAGGTTT-ACTCATAGTCACCTTTAGTTGATTGTACTAGTTTAGCCCTAGTC
65 ACCTTTTT-GACCTAGGTTTCA-TCATAGCCACCATTAGTTGACTGTACTAGTTTAGCCCTAGCC
* * * * *
4401524 AACCCTTTTT-A-TGTAGGTTTCATCCTAGTCACTTTTAGTTGACTATACTAGTTTAGCCTTGGT
128 AACACTTTTTGACT-TAGGTTTCACCCTAATCACCTTTAGTTGACTATAATAGTTTAGCCTTGGT
4401587 CAA
192 CAA
* *
4401590 TCCTTTTCAACTTA
1 CCCTTTTCGACTTA
4401604 CACCTTTAGT
Statistics
Matches: 171, Mismatches: 33, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
193 1 0.01
194 116 0.68
195 54 0.32
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (194 bp):
CCCTTTTCGACTTAGGTTTCATCCTAGTCACCTTTAGTTAATTGTACTAGTTTAGCCCAGGCCAA
CCTTTTTGACCTAGGTTTCATCATAGCCACCATTAGTTGACTGTACTAGTTTAGCCCTAGCCAAC
ACTTTTTGACTTAGGTTTCACCCTAATCACCTTTAGTTGACTATAATAGTTTAGCCTTGGTCAA
Found at i:4401879 original size:41 final size:41
Alignment explanation
Indices: 4401799--4402027 Score: 183
Period size: 41 Copynumber: 5.6 Consensus size: 41
4401789 TCACCTTTTT
* * * *
4401799 TTGACTCGTATGGTTTCATCTCGATCAACCCTAT-TAACTCG
1 TTGACTCATATGGTTTCATCTTGGTTAACCCT-TCTAACTCG
* * * *
4401840 TTAACTCATATGGTTTCATCTTGGTTAACCTTTCGAACTCA
1 TTGACTCATATGGTTTCATCTTGGTTAACCCTTCTAACTCG
** * * *
4401881 TTGACTTGTATGGTTTCATCCTAGTTAACCCTTCTAACTCA
1 TTGACTCATATGGTTTCATCTTGGTTAACCCTTCTAACTCG
* ** * * * * *
4401922 TTTACTTGTATAGG-TTCTTCCTGATTAGCCCTTCTAACTTG
1 TTGACTCATAT-GGTTTCATCTTGGTTAACCCTTCTAACTCG
** * *
4401963 TTGACTCATATGGTTTCAAATTGGTCAACCCTTCTAACTTG
1 TTGACTCATATGGTTTCATCTTGGTTAACCCTTCTAACTCG
**
4402004 TTGGTTCATATGGTTTCATCTTGG
1 TTGACTCATATGGTTTCATCTTGG
4402028 CCAACTTTTT
Statistics
Matches: 149, Mismatches: 36, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
40 3 0.02
41 144 0.97
42 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (41 bp):
TTGACTCATATGGTTTCATCTTGGTTAACCCTTCTAACTCG
Found at i:4402582 original size:40 final size:41
Alignment explanation
Indices: 4402538--4402624 Score: 113
Period size: 40 Copynumber: 2.1 Consensus size: 41
4402528 TCACCTTTTA
* * * *
4402538 TTGACTCATATGGTTTTGTCTCAGTCAACCCTT-TAACTTG
1 TTGACTCAAATGGTTTCGTCTCAGTCAAACATTCTAACTTG
* *
4402578 TTGACTCAAATGGTTTCGTTTTAGTCAAACATTCTAACTTG
1 TTGACTCAAATGGTTTCGTCTCAGTCAAACATTCTAACTTG
4402619 TTGACT
1 TTGACT
4402625 TGGATGGTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 27 0.68
41 13 0.32
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.43
Consensus pattern (41 bp):
TTGACTCAAATGGTTTCGTCTCAGTCAAACATTCTAACTTG
Found at i:4405007 original size:19 final size:20
Alignment explanation
Indices: 4404983--4405033 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
4404973 TTATGCTTTG
4404983 TATCGATACATGTTC-ATTA
1 TATCGATACATGTTCAATTA
** *
4405002 TATCGATACACATTCAATTG
1 TATCGATACATGTTCAATTA
4405022 TATCGATACATG
1 TATCGATACATG
4405034 AAACTGGCAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (20 bp):
TATCGATACATGTTCAATTA
Found at i:4413854 original size:13 final size:13
Alignment explanation
Indices: 4413832--4413865 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
4413822 TTATGCTTTA
4413832 TATCGATACATTG
1 TATCGATACATTG
*
4413845 TATTGATACATTG
1 TATCGATACATTG
4413858 TATCGATA
1 TATCGATA
4413866 AACACTCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:4413931 original size:43 final size:43
Alignment explanation
Indices: 4413882--4413965 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
4413872 CAATTATATT
4413882 GATACATGAAACTGGCAGTAACTACCCTATCACTATTTGTATC
1 GATACATGAAACTGGCAGTAACTACCCTATCACTATTTGTATC
* *
4413925 GATACATGAAATTGGCAGTAGCTACCCTATCACTATTTGTA
1 GATACATGAAACTGGCAGTAACTACCCTATCACTATTTGTA
4413966 GAGATTGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.31
Consensus pattern (43 bp):
GATACATGAAACTGGCAGTAACTACCCTATCACTATTTGTATC
Found at i:4419885 original size:14 final size:12
Alignment explanation
Indices: 4419862--4419898 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 12
4419852 TTGCCATTTT
4419862 CTTTCTTCATTG
1 CTTTCTTCATTG
4419874 CATTTGCTTCATTG
1 C-TTT-CTTCATTG
4419888 CTTTCTTCATT
1 CTTTCTTCATT
4419899 ACACTTCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.35
13 6 0.26
14 9 0.39
ACGTcount: A:0.11, C:0.24, G:0.08, T:0.57
Consensus pattern (12 bp):
CTTTCTTCATTG
Found at i:4420189 original size:23 final size:23
Alignment explanation
Indices: 4420159--4420214 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
4420149 TAATTATCAC
*
4420159 TATTTTTAT-GTATATATTTTTT
1 TATTTTTATAGTATATATTATTT
* *
4420181 ATATTTTTATATTTTATATTATTT
1 -TATTTTTATAGTATATATTATTT
4420205 TATTTTTATA
1 TATTTTTATA
4420215 TTTTTTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (23 bp):
TATTTTTATAGTATATATTATTT
Found at i:4420194 original size:31 final size:30
Alignment explanation
Indices: 4420159--4420223 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 30
4420149 TAATTATCAC
4420159 TATTTT-TATGTA-TATATTTTTTATATTTTT
1 TATTTTATAT-TATTATA-TTTTTATATTTTT
*
4420189 ATATTTTATATTATTTTATTTTTATATTTTT
1 -TATTTTATATTATTATATTTTTATATTTTT
4420220 TATT
1 TATT
4420224 AATATTAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
30 4 0.13
31 21 0.68
32 6 0.19
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (30 bp):
TATTTTATATTATTATATTTTTATATTTTT
Found at i:4420195 original size:15 final size:14
Alignment explanation
Indices: 4420177--4420223 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 14
4420167 TGTATATATT
4420177 TTTTATATTTTTATA
1 TTTTATATTTTT-TA
4420192 TTTTATATTATTTTA
1 TTTTATATT-TTTTA
4420207 TTTTTATATTTTTTA
1 -TTTTATATTTTTTA
4420222 TT
1 TT
4420224 AATATTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 2 0.07
15 16 0.53
16 12 0.40
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATATTTTTTA
Found at i:4420223 original size:23 final size:24
Alignment explanation
Indices: 4420171--4420224 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
4420161 TTTTTATGTA
*
4420171 TATATTTTTTATATTTTTATATTT
1 TATATTATTTATATTTTTATATTT
4420195 TATATTATTT-TATTTTTATATTT
1 TATATTATTTATATTTTTATATTT
*
4420218 TTTATTA
1 TATATTA
4420225 ATATTAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 19 0.68
24 9 0.32
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (24 bp):
TATATTATTTATATTTTTATATTT
Found at i:4423417 original size:16 final size:16
Alignment explanation
Indices: 4423396--4423431 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
4423386 ATGGATTTTT
4423396 AAAAAAAGCAAAAAA-A
1 AAAAAAAG-AAAAAAGA
4423412 AAAAAAAGAAAAAAGA
1 AAAAAAAGAAAAAAGA
4423428 AAAA
1 AAAA
4423432 GAAAATTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAAAAAGA
Found at i:4423423 original size:13 final size:13
Alignment explanation
Indices: 4423407--4423436 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4423397 AAAAAAGCAA
4423407 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
*
4423420 AAAAAAGAAAAAG
1 AAAAAAAAAAAAG
4423433 AAAA
1 AAAA
4423437 TTCAATTGCA
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:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:4424974 original size:88 final size:88
Alignment explanation
Indices: 4424810--4425006 Score: 216
Period size: 88 Copynumber: 2.2 Consensus size: 88
4424800 ACCACATCGC
* * * * ** ** ***
4424810 ATTTGCATCATTTCATATGCATTTGTTTCTTTGTTGATGTTTGCATTTGCATTGTTTCACTTGCA
1 ATTTGCATCATTTCATATGCATTTGCTTCTTTATTAATGCTTGCATTTGCATCATCACACGCACA
* * *
4424875 TCTGCATTTTAGATCACATTAGT
66 TCTGCACTTTAGATAACATGAGT
*
4424898 ATTTGCATCATTCCATATGCATTTGCCTT-TTTATTAATGCTTGCATTTGCATCATCACACGCAC
1 ATTTGCATCATTTCATATGCATTTG-CTTCTTTATTAATGCTTGCATTTGCATCATCACACGCAC
* *
4424962 ATTTGCACTTTAGATAACATGGGT
65 ATCTGCACTTTAGATAACATGAGT
*
4424986 ATTTGCATTATTTCATATGCA
1 ATTTGCATCATTTCATATGCA
4425007 ATAACAATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
88 87 0.98
89 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.45
Consensus pattern (88 bp):
ATTTGCATCATTTCATATGCATTTGCTTCTTTATTAATGCTTGCATTTGCATCATCACACGCACA
TCTGCACTTTAGATAACATGAGT
Found at i:4425078 original size:18 final size:19
Alignment explanation
Indices: 4425037--4425078 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4425027 TGCATTGTTA
*
4425037 TTTGCCTTATTTCTAGTGT
1 TTTGCCTTATTTCTAATGT
4425056 TTTGCCTT-TTTACTAAT-T
1 TTTGCCTTATTT-CTAATGT
4425074 TTTGC
1 TTTGC
4425079 ATAACCATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.12, C:0.17, G:0.12, T:0.60
Consensus pattern (19 bp):
TTTGCCTTATTTCTAATGT
Found at i:4425962 original size:92 final size:92
Alignment explanation
Indices: 4425776--4426076 Score: 245
Period size: 92 Copynumber: 3.3 Consensus size: 92
4425766 CTTCACCCAA
* * * * *
4425776 CCACTAGATGGTATTGATACA-CTACAAAGCCTAATTTCCTTAAGGCAAAGG-TGCAGCCC--CC
1 CCACTAGATGGTATTGATGCATC-ACAAAGCCTGATATCCTTAGGGC-AAGGAT--ATCCCAACC
**** *
4425837 A--CATTCCCAATCATATCCCTTTCACCCAA
62 ACTCATTCCCAATCATATCCCTTTCTTTTAG
* * * * ** * *** **
4425866 CCACTAGTTAGTGTCGATGCATCACAAAGTGTGATATCCTTAGGGCTAGGATATCTTGACCGGTC
1 CCACTAGATGGTATTGATGCATCACAAAGCCTGATATCCTTAGGGCAAGGATATCCCAACCACTC
*
4425931 ATTCCTAATCATATCCCTTTCTTTTAG
66 ATTCCCAATCATATCCCTTTCTTTTAG
* * * * *
4425958 CCACTGGATGGTATTGATGCATCACAAAGCCTGCTTTTCTTAGGGCAAGGATATCCCAACCACTT
1 CCACTAGATGGTATTGATGCATCACAAAGCCTGATATCCTTAGGGCAAGGATATCCCAACCACTC
* *
4426023 ATTCCCAATCATCCTCCATTTCTTTTAG
66 ATTCCCAATCAT-ATCCCTTTCTTTTAG
4426051 CCACTAGATGGTATTGATGCATCACA
1 CCACTAGATGGTATTGATGCATCACA
4426077 TGACCATAAA
Statistics
Matches: 162, Mismatches: 42, Indels: 11
0.75 0.20 0.05
Matches are distributed among these distances:
88 2 0.01
89 3 0.02
90 37 0.23
91 1 0.01
92 81 0.50
93 38 0.23
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (92 bp):
CCACTAGATGGTATTGATGCATCACAAAGCCTGATATCCTTAGGGCAAGGATATCCCAACCACTC
ATTCCCAATCATATCCCTTTCTTTTAG
Found at i:4426517 original size:35 final size:35
Alignment explanation
Indices: 4426471--4426728 Score: 195
Period size: 35 Copynumber: 7.5 Consensus size: 35
4426461 CTTTACTAAA
* * * **
4426471 CAAACCCTTTTCATCATCATTTCATTGCATCTGGT
1 CAAACTCTTTTCATCATCATTTGACTATATCTGGT
* * *
4426506 CAAACCCTTTTCATCATCGTTTGGCTATATCTGGT
1 CAAACTCTTTTCATCATCATTTGACTATATCTGGT
* * *
4426541 CAAACTCTATTCATCATCGTTT-AGCTATATATGGT
1 CAAACTCTTTTCATCATCATTTGA-CTATATCTGGT
** *
4426576 CAAACTCTTTTCATCATCATTTGGTTGTATCTGGT
1 CAAACTCTTTTCATCATCATTTGACTATATCTGGT
* * * *
4426611 AAAACTCTTTTCATCATC----GGCTACATCTGAT
1 CAAACTCTTTTCATCATCATTTGACTATATCTGGT
** ** *
4426642 CAAACTCTTTTCATCATTGTTTGGTTGAAAT-TGGT
1 CAAACTCTTTTCATCATCATTTGACT-ATATCTGGT
* * * * *
4426677 GAAACTCTTTTCACCATCATTTGGCTGTATCTAGT
1 CAAACTCTTTTCATCATCATTTGACTATATCTGGT
*
4426712 CAAACTCTTTTTATCAT
1 CAAACTCTTTTCATCAT
4426729 TATAGAAACC
Statistics
Matches: 178, Mismatches: 37, Indels: 16
0.77 0.16 0.07
Matches are distributed among these distances:
31 25 0.14
34 2 0.01
35 148 0.83
36 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.41
Consensus pattern (35 bp):
CAAACTCTTTTCATCATCATTTGACTATATCTGGT
Found at i:4426586 original size:70 final size:69
Alignment explanation
Indices: 4426499--4426728 Score: 252
Period size: 70 Copynumber: 3.3 Consensus size: 69
4426489 ATTTCATTGC
* * * *
4426499 ATCTGGTCAAACCCTTTTCATCATCGTTTGGCTATATCTGGTCAAACTCTATTCATCATCGTTTA
1 ATCTGGTCAAACTCTTTTCATCATCGTTTGGTTATATCTGGTAAAACTCTTTTCATCATCGTTT-
4426564 GCTAT
65 GCTAT
* * *
4426569 ATATGGTCAAACTCTTTTCATCATCATTTGGTTGTATCTGGTAAAACTCTTTTCATCATCG---G
1 ATCTGGTCAAACTCTTTTCATCATCGTTTGGTTATATCTGGTAAAACTCTTTTCATCATCGTTTG
*
4426631 CTAC
66 CTAT
* * * * * *
4426635 ATCTGATCAAACTCTTTTCATCATTGTTTGGTTGAAAT-TGGTGAAACTCTTTTCACCATCATTT
1 ATCTGGTCAAACTCTTTTCATCATCGTTTGGTT-ATATCTGGTAAAACTCTTTTCATCATCGTTT
*
4426699 GGCTGT
65 -GCTAT
* *
4426705 ATCTAGTCAAACTCTTTTTATCAT
1 ATCTGGTCAAACTCTTTTCATCAT
4426729 TATAGAAACC
Statistics
Matches: 133, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
66 53 0.40
67 2 0.02
70 78 0.59
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (69 bp):
ATCTGGTCAAACTCTTTTCATCATCGTTTGGTTATATCTGGTAAAACTCTTTTCATCATCGTTTG
CTAT
Found at i:4426686 original size:101 final size:102
Alignment explanation
Indices: 4426471--4426728 Score: 304
Period size: 101 Copynumber: 2.5 Consensus size: 102
4426461 CTTTACTAAA
* ** * * *
4426471 CAAACCCTTTTCATCATCATTTCATTGCATCTGGTCAAACCCTTTTCATCATCGTTTGGCTATAT
1 CAAACTCTTTTCATCATCATTTGGTTGTATCTGGTCAAACTCTTTTCATCATC---TGGCTACAT
* *
4426536 CTGGTCAAACTCTATTCATCATCGTTTAGCTATATATGGT
63 CTGATCAAACTCTATTCATCATCGTTTAGCTAAATATGGT
*
4426576 CAAACTCTTTTCATCATCATTTGGTTGTATCTGGTAAAACTCTTTTCATCATC-GGCTACATCTG
1 CAAACTCTTTTCATCATCATTTGGTTGTATCTGGTCAAACTCTTTTCATCATCTGGCTACATCTG
* * * *
4426640 ATCAAACTCTTTTCATCATTGTTTGGTTGAAAT-TGGT
66 ATCAAACTCTATTCATCATCGTTTAGCT-AAATATGGT
* * * * *
4426677 GAAACTCTTTTCACCATCATTTGGCTGTATCTAGTCAAACTCTTTTTATCAT
1 CAAACTCTTTTCATCATCATTTGGTTGTATCTGGTCAAACTCTTTTCATCAT
4426729 TATAGAAACC
Statistics
Matches: 133, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
101 83 0.62
102 3 0.02
105 47 0.35
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.41
Consensus pattern (102 bp):
CAAACTCTTTTCATCATCATTTGGTTGTATCTGGTCAAACTCTTTTCATCATCTGGCTACATCTG
ATCAAACTCTATTCATCATCGTTTAGCTAAATATGGT
Found at i:4432378 original size:79 final size:79
Alignment explanation
Indices: 4432261--4432478 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 79
4432251 GAGATAATAA
* * * * *
4432261 CGGGGTTGGAGTGTCCCCT-TGAAAATGACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATG
1 CGGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCGAT-
4432325 A-TTAGAGAA-AAA-C
64 ATTTAGAGAATAAAGC
* ** *
4432338 ATCGGGGTTGGAGTATCCTCTCAGAAATAACGGGGTTGGAGTATCCCTAATTATGAGAAATCGAT
1 --CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCGAT
* *
4432403 ATTTTGGGAATAAAGC
64 ATTTAGAGAATAAAGC
* **
4432419 CGGGGTTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATTGTGAAGAAAT
1 CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTG-AGAAAT
4432479 TGGGGTTTTT
Statistics
Matches: 116, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
78 1 0.01
79 104 0.90
80 10 0.09
81 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCGATAT
TTAGAGAATAAAGC
Found at i:4432516 original size:82 final size:79
Alignment explanation
Indices: 4432243--4432516 Score: 232
Period size: 79 Copynumber: 3.4 Consensus size: 79
4432233 GAGAAATTTA
* * * * *
4432243 ATATTTTGGAGATAATAA-CGGGGTTGGAGTGTCCCCT-TGAAAATGACGGGGCTGGAGTATCCC
1 ATATTTTGGAAATAA-AATCGGGGTTGGAGTATCCCCTCAG-AAATAACGGGGTTGGAGTATCCC
** *
4432306 CGGTTGTGAGAAATCG
64 CAATTATGAGAAATCG
* * *
4432322 ATGA-TTAGAGAAA-AACATCGGGGTTGGAGTATCCTCTCAGAAATAACGGGGTTGGAGTATCCC
1 AT-ATTTTG-GAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCC
*
4432385 TAATTATGAGAAATCG
64 CAATTATGAGAAATCG
* ** * ** *
4432401 ATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCG
1 ATATTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCA
* *
4432466 ATTGTGAAGAAATTGGG
66 ATTATG-AGAAA-T-CG
* * * *
4432483 GTTTTTTGGAAATAAAATCGGAGTTAGAGTATCC
1 ATATTTTGGAAATAAAATCGGGGTTGGAGTATCC
4432517 TCGATTATAG
Statistics
Matches: 154, Mismatches: 32, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
78 5 0.03
79 110 0.71
80 10 0.06
81 1 0.01
82 28 0.18
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (79 bp):
ATATTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCA
ATTATGAGAAATCG
Found at i:4435008 original size:19 final size:18
Alignment explanation
Indices: 4434984--4435051 Score: 65
Period size: 19 Copynumber: 3.9 Consensus size: 18
4434974 CAGTAGCTAA
*
4434984 TTATGTATTGATACAATAC
1 TTATGTATCGATACAA-AC
4435003 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
4435018 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
*
4435035 TTATGTATTGATACAAA
1 TTATGTATCGATACAAA
4435052 TTGTTGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
13 11 0.27
14 1 0.02
16 2 0.05
18 4 0.10
19 23 0.56
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:4435024 original size:13 final size:13
Alignment explanation
Indices: 4435006--4435030 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4434996 ACAATACTTA
4435006 TGTATCGATACAT
1 TGTATCGATACAT
4435019 TGTATCGATACA
1 TGTATCGATACA
4435031 AAACTTATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4435029 original size:32 final size:32
Alignment explanation
Indices: 4434987--4435049 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
4434977 TAGCTAATTA
* *
4434987 TGTATTGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
*
4435019 TGTATCGATACAAAACTTATGTATTGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
4435050 AATTGTTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:4436209 original size:13 final size:13
Alignment explanation
Indices: 4436191--4436216 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4436181 CATTTTGGGA
4436191 TGTATCGATACAT
1 TGTATCGATACAT
4436204 TGTATCGATACAT
1 TGTATCGATACAT
4436217 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4436214 original size:33 final size:32
Alignment explanation
Indices: 4436171--4436234 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
4436161 TACAAGCCAA
* * *
4436171 TGTATTGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TGTATCAATACAT
*
4436204 TGTATCGATACATCTTGTGTGTATCAATACA
1 TGTATCGATACATCTTGGGTGTATCAATACA
4436235 AACAGTTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCAATACAT
Found at i:4438804 original size:13 final size:13
Alignment explanation
Indices: 4438786--4438821 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
4438776 ATAAACCCTT
**
4438786 TGTATCGATACGC
1 TGTATCGATACAA
4438799 TGTATCGATACAA
1 TGTATCGATACAA
4438812 TGTATCGATA
1 TGTATCGATA
4438822 TAGAGAATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4444997 original size:13 final size:13
Alignment explanation
Indices: 4444979--4445004 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4444969 CATTTTGGGA
4444979 TGTATCGATACAT
1 TGTATCGATACAT
4444992 TGTATCGATACAT
1 TGTATCGATACAT
4445005 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4445001 original size:33 final size:32
Alignment explanation
Indices: 4444959--4445022 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
4444949 TACAAGCCAA
*
4444959 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TGTATCGATACAT
*
4444992 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
4445023 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:4446865 original size:34 final size:34
Alignment explanation
Indices: 4446811--4446875 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
4446801 TTTTACCCAG
4446811 ATGTATCGATTCATTTTTCAATGTATCGATATGA
1 ATGTATCGATTCATTTTTCAATGTATCGATATGA
*
4446845 ATGTATCG-TT-ACTTTCTTCAATGTATTGATA
1 ATGTATCGATTCA-TTT-TTCAATGTATCGATA
4446876 CATTCTATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 1 0.04
33 5 0.18
34 22 0.79
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (34 bp):
ATGTATCGATTCATTTTTCAATGTATCGATATGA
Found at i:4456428 original size:28 final size:28
Alignment explanation
Indices: 4456384--4456735 Score: 307
Period size: 28 Copynumber: 12.0 Consensus size: 28
4456374 ACATTCTTCT
*
4456384 CTTT-AAAGCCCATAAGTTAGTGGCACC
1 CTTTCAAAGCCCACAAGTTAGTGGCACC
* * * *
4456411 CTTTCAAAGGCCACAAGTCAATGGCA-T
1 CTTTCAAAGCCCACAAGTTAGTGGCACC
* *
4456438 CTCTTCAAAAGACCACAA-TTCAGTGACACC
1 CT-TTC-AAAGCCCACAAGTT-AGTGGCACC
4456468 CTTTCAAAGCCCACAAGTTAGTGGCATACC
1 CTTTCAAAGCCCACAAGTTAGTGGC--ACC
*
4456498 CTTTCAAAGCCGAAACAAGTTAGTGGCACC
1 CTTTCAAAGCC--CACAAGTTAGTGGCACC
*
4456528 CTTTCAAAGCCCACAAGTTAGTGGTATACC
1 CTTTCAAAGCCCACAAGTTAGTGG--CACC
*
4456558 CTTTCAAAGCCCACACAAGTCAGTGGCACC
1 CTTTCAAAG-CC-CACAAGTTAGTGGCACC
* *
4456588 CTTCCAAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTTAGTGGCACC
*
4456616 CTTTCAAAGCCCACAAGTCAGTGGCATACC
1 CTTTCAAAGCCCACAAGTTAGTGGC--ACC
* * * *
4456646 CTTTCAATGCCCATAAG-TCGATGGTACC
1 CTTTCAAAGCCCACAAGTTAG-TGGCACC
** *
4456674 CTTTCAAAGCCCACACAAGTCGGTGGTAACTC
1 CTTTCAAAG-CC-CACAAGTTAGTGG-CAC-C
*
4456706 TTTTCAAAGCCCACACAAGTTAGTGGCACC
1 CTTTCAAAG-CC-CACAAGTTAGTGGCACC
4456736 TTCGTTTTTT
Statistics
Matches: 270, Mismatches: 33, Indels: 41
0.78 0.10 0.12
Matches are distributed among these distances:
27 6 0.02
28 100 0.37
29 25 0.09
30 83 0.31
31 7 0.03
32 49 0.18
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (28 bp):
CTTTCAAAGCCCACAAGTTAGTGGCACC
Found at i:4456537 original size:60 final size:59
Alignment explanation
Indices: 4456384--4456733 Score: 344
Period size: 60 Copynumber: 5.9 Consensus size: 59
4456374 ACATTCTTCT
* * * * * *
4456384 CTTT-AAAGCC-CATAAGTTAGTGGCACCCTTTCAAAGGCCACAAGTCAATGGCAT-CT
1 CTTTCAAAGCCACACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATACC
* * *
4456440 C-TTCAAAAGAC-CACAATTCAGTGACACCCTTTCAAAGCCCACAAGTTAGTGGCATACC
1 CTTTC-AAAGCCACACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATACC
* * *
4456498 CTTTCAAAGCCGAAACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGTATACC
1 CTTTCAAAGCC-ACACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATACC
* *
4456558 CTTTCAAAGCCCACACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAGTGGC--ACC
1 CTTTCAAAG-CCACACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATACC
* * *
4456616 CTTTCAAAGCC-CACAAGTCAGTGGCATACCCTTTCAATGCCCATAAG-TCGATGG--TACC
1 CTTTCAAAGCCACACAAGTCAGTGGC--ACCCTTTCAAAGCCCACAAGTTAG-TGGCATACC
* * *
4456674 CTTTCAAAGCCCACACAAGTCGGTGGTAACTCTTTTCAAAGCCCACACAAGTTAGTGGCA
1 CTTTCAAAG-CCACACAAGTCAGTGG-CAC-CCTTTCAAAG-CC-CACAAGTTAGTGGCA
4456734 CCTTCGTTTT
Statistics
Matches: 243, Mismatches: 31, Indels: 32
0.79 0.10 0.10
Matches are distributed among these distances:
55 2 0.01
56 15 0.06
57 45 0.19
58 51 0.21
59 7 0.03
60 109 0.45
61 4 0.02
62 8 0.03
63 2 0.01
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (59 bp):
CTTTCAAAGCCACACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCATACC
Found at i:4456718 original size:148 final size:147
Alignment explanation
Indices: 4456384--4456735 Score: 414
Period size: 148 Copynumber: 2.4 Consensus size: 147
4456374 ACATTCTTCT
* * * * * *
4456384 CTTT-AAAGCCCATAAGTTAGTGG--CACCCTTTCAAAG-GC-CACAAGTCAATGGCATCTCTTC
1 CTTTCAAAGCCCACAAGTCAGTGGTATACCCTTTCAAAGCCCACACAAGTCAGTGGCA-CCCTTC
* *
4456444 AAAAGACCACAATTCAGTGACACCCTTTCAAAGCCCACAAGTTAGTGGCATACCCTTTCAAAGCC
65 AAAAGACCACAAGTCAGTGACACCCTTTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAGCC
*
4456509 GAAACAAGTTAGTGGCACC
130 -AAACAAGTGAGTGGCACC
* *
4456528 CTTTCAAAGCCCACAAGTTAGTGGTATACCCTTTCAAAGCCCACACAAGTCAGTGGCACCCTTCC
1 CTTTCAAAGCCCACAAGTCAGTGGTATACCCTTTCAAAGCCCACACAAGTCAGTGGCACCCTTCA
* * *
4456593 AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAATGCC-
66 AAAGACCACAAGTCAGTGACACCCTTTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAGCCA
* * *
4456657 CATAAGTCGA-TGGTACC
131 AACAAGT-GAGTGGCACC
* * *
4456674 CTTTCAAAGCCCACACAAGTCGGTGGTA-ACTCTTTTCAAAGCCCACACAAGTTAGTGGCACC
1 CTTTCAAAG-CC-CACAAGTCAGTGGTATAC-CCTTTCAAAGCCCACACAAGTCAGTGGCACC
4456736 TTCGTTTTTT
Statistics
Matches: 180, Mismatches: 19, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
144 4 0.02
145 18 0.10
146 20 0.11
147 17 0.09
148 107 0.59
149 14 0.08
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (147 bp):
CTTTCAAAGCCCACAAGTCAGTGGTATACCCTTTCAAAGCCCACACAAGTCAGTGGCACCCTTCA
AAAGACCACAAGTCAGTGACACCCTTTCAAAGCCCACAAGTCAGTGGCATACCCTTTCAAAGCCA
AACAAGTGAGTGGCACC
Found at i:4457600 original size:20 final size:20
Alignment explanation
Indices: 4457575--4457627 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
4457565 TTACCTAGAC
*
4457575 GTATCGATACATTTTTCAAT
1 GTATCGATACATTTATCAAT
* *
4457595 GTATCGATACATGTATGAAT
1 GTATCGATACATTTATCAAT
*
4457615 GTATCGATTCATT
1 GTATCGATACATT
4457628 CTGTCTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
GTATCGATACATTTATCAAT
Found at i:4457678 original size:71 final size:71
Alignment explanation
Indices: 4457562--4457748 Score: 259
Period size: 71 Copynumber: 2.6 Consensus size: 71
4457552 AAAAGTCACA
* * * * * * *
4457562 TTTTTACCTAGACGTATCGATACATTTTTCAATGTATCGATACATGTATGAATGTATCGATTCAT
1 TTTTTACCTAGATGTATTGATACATTTTACAATGTATCGATACATGTACGAATCTATCAATACAT
*
4457627 TCTGTC
66 TCTGCC
4457633 TTTTTACCTAGATGTATTGATACATTTTACAATGTATCGATACATGTACGAATCTATCAATACAT
1 TTTTTACCTAGATGTATTGATACATTTTACAATGTATCGATACATGTACGAATCTATCAATACAT
4457698 TCTGCC
66 TCTGCC
** *
4457704 TTTTTAACC-AGATGTATTGATACATTGAATAATGTATCGATACAT
1 TTTTT-ACCTAGATGTATTGATACATTTTACAATGTATCGATACAT
4457749 CTAGTTAAAA
Statistics
Matches: 104, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
71 101 0.97
72 3 0.03
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (71 bp):
TTTTTACCTAGATGTATTGATACATTTTACAATGTATCGATACATGTACGAATCTATCAATACAT
TCTGCC
Found at i:4459379 original size:11 final size:11
Alignment explanation
Indices: 4459353--4459383 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
4459343 TCGAGCCGTT
4459353 ATATTTTTCAA
1 ATATTTTTCAA
4459364 A-ATTTTTCAA
1 ATATTTTTCAA
4459374 ATATTTTTCA
1 ATATTTTTCA
4459384 TAAAAACGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (11 bp):
ATATTTTTCAA
Found at i:4465215 original size:13 final size:12
Alignment explanation
Indices: 4465184--4465214 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
4465174 CTTTTTAGCC
4465184 AAAAAAAGCAAA
1 AAAAAAAGCAAA
4465196 AAAAAAAGCAAA
1 AAAAAAAGCAAA
4465208 AAAAAAA
1 AAAAAAA
4465215 ATAAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.87, C:0.06, G:0.06, T:0.00
Consensus pattern (12 bp):
AAAAAAAGCAAA
Found at i:4465670 original size:14 final size:14
Alignment explanation
Indices: 4465651--4465700 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
4465641 ATATCAAAAT
4465651 TTTAATTTTTATAA
1 TTTAATTTTTATAA
*
4465665 TTTAATCTTTT-TTA
1 TTTAAT-TTTTATAA
*
4465679 -TTAATTTTTATAG
1 TTTAATTTTTATAA
*
4465692 TATAATTTT
1 TTTAATTTT
4465701 ATAGATATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
12 4 0.14
13 6 0.21
14 15 0.52
15 4 0.14
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (14 bp):
TTTAATTTTTATAA
Found at i:4467725 original size:157 final size:154
Alignment explanation
Indices: 4467278--4467727 Score: 523
Period size: 156 Copynumber: 2.9 Consensus size: 154
4467268 GCCGAATACA
* *
4467278 TCTAAGTC-AAAGGTATCCCTAAGGGTATTTTTATAATTTTTTCAAAACTGCATCCTAGGTTGTC
1 TCTAAGTCGAAA-GTATCCCTAAGGGTATTTTCATAATTTTTTCAAAACCG-ATCCTAGGTTGTC
* * * * *
4467342 ACCATGTCCATTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCATCAATAATCTTTTT
64 ATC-GGTCCACTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTCATCCCATCAATAATCCTTTT
* *
4467407 TAAGT-CTTCTAGGGTTATTGGGCACT
128 TAAGTCCTTCTAAGGTTATCGGGCACT
* * * * * * *
4467433 TGTAAGTCGAAAGTAT-CTTATTAAGGCATTTTCATAATTTTTCCAAAATCGATTCCTATGTTGT
1 TCTAAGTCGAAAGTATCCCTA--AGGGTATTTTCATAATTTTTTCAAAACCGA-TCCTAGGTTGT
* ** * *
4467497 CACTAGGTCTGCTTTTATGCTAAAGGTGGGTATTTAAGATAGGTTCATCCCATCAACAAT-CTTT
63 CA-TCGGTCCACTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTCATCCCATCAATAATCCTTT
4467561 TTAAAGTCCTT-TAAGGTTATCGGGCACT
127 TT-AAGTCCTTCTAAGGTTATCGGGCACT
* *
4467589 TCTAAGTCGAAAGTATCCCTAAGGGGTATTTCCATAATTTTTTTAAGAACCGAGTCCTAGGTTGT
1 TCTAAGTCGAAAGTATCCCTAA-GGGTATTTTCATAATTTTTTCAA-AACCGA-TCCTAGGTTGT
* * *
4467654 CATCGGATCCACTTTTATGCTGAAGTTGGGTATTTAGGATAGGTTCATCCCATCTATAATCCTTT
63 CATCGG-TCCACTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTCATCCCATCAATAATCCTTT
4467719 TTAAGTCCT
127 TTAAGTCCT
4467728 GCAGGGTTAC
Statistics
Matches: 244, Mismatches: 39, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
154 3 0.01
155 18 0.07
156 141 0.58
157 76 0.31
158 6 0.02
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (154 bp):
TCTAAGTCGAAAGTATCCCTAAGGGTATTTTCATAATTTTTTCAAAACCGATCCTAGGTTGTCAT
CGGTCCACTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTCATCCCATCAATAATCCTTTTTAA
GTCCTTCTAAGGTTATCGGGCACT
Found at i:4467824 original size:157 final size:156
Alignment explanation
Indices: 4467337--4467829 Score: 461
Period size: 156 Copynumber: 3.1 Consensus size: 156
4467327 GCATCCTAGG
* * *
4467337 TTGTCACCATGTCCATTTTTATGCCAAAGGTGGGTATTTAGGATAGGTTCATCCCATCAATAATC
1 TTGTCACCAGGTCCACTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTCATCCCATCAATAATC
* * * * *
4467402 TTTTTTAAGT-CTTCTAGGGTTATTGGGCACTTGT-A-AGTCGAAAGTATCTTATTAAGGCATTT
66 CTTTTTAAGTCCTTC-AGGGTTA-CGGGCACTT-TCATAGTCGAAAGTATCCTCTAAAGGCATTT
* *
4467464 TCATAATTTTTCC-AAAATCGATTCCT-AT
128 TCATAA-TTTTCCTAGAATCGAGTCCTAAT
* ** * *
4467492 GTTGTCACTAGGTCTGCTTTTATGCTAAAGGTGGGTATTTAAGATAGGTTCATCCCATCAACAAT
1 -TTGTCACCAGGTCCACTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTCATCCCATCAATAAT
* * * *
4467557 -CTTTTTAAAGTCCTTTAAGGTTATCGGGCAC-TTC-TAAGTCGAAAGTATCC-CTAAGGGGTAT
65 CCTTTTT-AAGTCCTTCAGGGTTA-CGGGCACTTTCAT-AGTCGAAAGTATCCTCTAA-AGGCAT
* ** * **
4467618 TTCCATAATTTTTTTAAGAACCGAGTCCTAGG
126 TTTCATAATTTTCCT-AGAATCGAGTCCTAAT
* * * *
4467650 TTGTCATC-GGATCCACTTTTATGCTGAAGTTGGGTATTTAGGATAGGTTCATCCCATCTATAAT
1 TTGTCACCAGG-TCCACTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTCATCCCATCAATAAT
* * ** * *
4467714 CCTTTTTAAGTCCTGCAGGGTTACCAAGATACTTTCATA-TCGAAGGTATACCTCTAAAGACATT
65 CCTTTTTAAGTCCTTCAGGGTTA-C-GGGCACTTTCATAGTCGAAAGTAT-CCTCTAAAGGCATT
4467778 TTCATAATTTTCCTAGAATCGAGTCCTAAT
127 TTCATAATTTTCCTAGAATCGAGTCCTAAT
4467808 TTGTCACCAGGT-CACTTTTATG
1 TTGTCACCAGGTCCACTTTTATG
4467830 TCGAGGGTAC
Statistics
Matches: 268, Mismatches: 52, Indels: 33
0.76 0.15 0.09
Matches are distributed among these distances:
154 1 0.00
155 12 0.04
156 99 0.37
157 89 0.33
158 39 0.15
159 23 0.09
160 5 0.02
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (156 bp):
TTGTCACCAGGTCCACTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTCATCCCATCAATAATC
CTTTTTAAGTCCTTCAGGGTTACGGGCACTTTCATAGTCGAAAGTATCCTCTAAAGGCATTTTCA
TAATTTTCCTAGAATCGAGTCCTAAT
Found at i:4469641 original size:19 final size:20
Alignment explanation
Indices: 4469599--4469641 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
4469589 TTGTTTGTTG
*
4469599 ATATGATGTTAATCTTTGTG
1 ATATGATGTTAATCTTTGTC
* *
4469619 ATATGATTTTGAT-TTTGTC
1 ATATGATGTTAATCTTTGTC
4469638 ATAT
1 ATAT
4469642 TTGAATATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (20 bp):
ATATGATGTTAATCTTTGTC
Found at i:4471550 original size:152 final size:153
Alignment explanation
Indices: 4471270--4471553 Score: 349
Period size: 152 Copynumber: 1.9 Consensus size: 153
4471260 ATTCACATTG
* * * * **
4471270 AAGGTATACCCAAGGGCATTTTCATAATTTTTCCTAGAACTAAGTCCAACAAAGTTATCGGGATG
1 AAGGTATACCCAAGGGCATTTTCATAATTTTTCCTAAAACTAACTCCAACAAAGTCACCAAGATG
* *
4471335 CTTTTAAGCCAAAGGTGTATTTAGAATAAGTTCACTCTTTTATGATCAATTTTGAGTTCTTTAGG
66 CTTTTAAGCCAAAGGTGTATTTAGAATAAGATCACTCTTTTATGATCAATTTTAAGTTCTTTAGG
4471400 GTTCCTATGATACTTTCACGTCA
131 GTTCCTATGATACTTTCACGTCA
* **
4471423 AAGGTATACCTCAAGGGCATTTTTATAATTTTTCCTAAAA-TCAACTCTGAC-AAGTCACCAAGA
1 AAGGTATACC-CAAGGGCATTTTCATAATTTTTCCTAAAACT-AACTCCAACAAAGTCACCAAGA
* * * * * * * * *
4471486 TGCTTTT-TGCTAAAGGTTTATTTAGGATAGGATCACTTTTTTGTGATCATTTTTAAGTTTTTTA
64 TGCTTTTAAGCCAAAGGTGTATTTAGAATAAGATCACTCTTTTATGATCAATTTTAAGTTCTTTA
4471550 GGGT
129 GGGT
4471554 AACCGAGGTA
Statistics
Matches: 109, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
152 50 0.46
153 26 0.24
154 33 0.30
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (153 bp):
AAGGTATACCCAAGGGCATTTTCATAATTTTTCCTAAAACTAACTCCAACAAAGTCACCAAGATG
CTTTTAAGCCAAAGGTGTATTTAGAATAAGATCACTCTTTTATGATCAATTTTAAGTTCTTTAGG
GTTCCTATGATACTTTCACGTCA
Found at i:4471579 original size:152 final size:153
Alignment explanation
Indices: 4471267--4471594 Score: 331
Period size: 152 Copynumber: 2.1 Consensus size: 153
4471257 TACATTCACA
* * * * **
4471267 TTGAAGGTATACCCAAGGGCATTTTCATAATTTTTCCTAGAACTAAGTCCAACAAAGTTATCGGG
1 TTGAAGGTATACCCAAGGGCATTTTCATAATTTTTCCTAAAACTAACTCCAACAAAGTCACCAAG
* *
4471332 ATGCTTTTAAGCCAAAGGTGTATTTAGAATAAGTTCACTCTTTTATGATCAATTTTGAGTTCTTT
66 ATGCTTTTAAGCCAAAGGTGTATTTAGAATAAGATCACTCTTTTATGATCAATTTTAAGTTCTTT
* * *
4471397 AGGGTTCCTATGATACTTTCACG
131 AGGGTACCGATGATACTTTAACG
** * **
4471420 TCAAAGGTATACCTCAAGGGCATTTTTATAATTTTTCCTAAAA-TCAACTCTGAC-AAGTCACCA
1 TTGAAGGTATACC-CAAGGGCATTTTCATAATTTTTCCTAAAACT-AACTCCAACAAAGTCACCA
* * * * * * * * *
4471483 AGATGCTTTT-TGCTAAAGGTTTATTTAGGATAGGATCACTTTTTTGTGATCATTTTTAAGTTTT
64 AGATGCTTTTAAGCCAAAGGTGTATTTAGAATAAGATCACTCTTTTATGATCAATTTTAAGTTCT
* * *
4471547 TTAGGGTAACCGA-GGTATTTTAATG
129 TTAGGGT-ACCGATGATACTTTAACG
*
4471572 TTGAAGGTATACCCCAATGGCAT
1 TTGAAGGTATA-CCCAAGGGCAT
4471595 ATTGGTAATT
Statistics
Matches: 140, Mismatches: 31, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
152 75 0.54
153 32 0.23
154 33 0.24
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (153 bp):
TTGAAGGTATACCCAAGGGCATTTTCATAATTTTTCCTAAAACTAACTCCAACAAAGTCACCAAG
ATGCTTTTAAGCCAAAGGTGTATTTAGAATAAGATCACTCTTTTATGATCAATTTTAAGTTCTTT
AGGGTACCGATGATACTTTAACG
Found at i:4473173 original size:14 final size:14
Alignment explanation
Indices: 4473154--4473183 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4473144 TACAAAGCAC
*
4473154 ATTGTATTGATACA
1 ATTGTATCGATACA
4473168 ATTGTATCGATACA
1 ATTGTATCGATACA
4473182 AT
1 AT
4473184 ATGCCTTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (14 bp):
ATTGTATCGATACA
Found at i:4475073 original size:21 final size:21
Alignment explanation
Indices: 4475018--4475073 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
4475008 ACACAAAGCT
*
4475018 ATTGTATCAATACAATAAGGA
1 ATTGTATCAATACATTAAGGA
* * *
4475039 A-GGTATCAACACATTATGGA
1 ATTGTATCAATACATTAAGGA
*
4475059 ATTGTATCGATACAT
1 ATTGTATCAATACAT
4475074 AGCCTTCCAA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (21 bp):
ATTGTATCAATACATTAAGGA
Found at i:4475635 original size:13 final size:13
Alignment explanation
Indices: 4475617--4475642 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4475607 ACATAAGTGT
4475617 TGTATCGATACAA
1 TGTATCGATACAA
4475630 TGTATCGATACAA
1 TGTATCGATACAA
4475643 AGCTACCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4481973 original size:52 final size:51
Alignment explanation
Indices: 4481894--4482025 Score: 165
Period size: 52 Copynumber: 2.6 Consensus size: 51
4481884 ATTTACTTGC
* * * * *
4481894 ATGTATCGATTCATTGAAGAATGTATCGACATATTTGGGTCAAAAACCCATA
1 ATGTATCGATACAATGAAAAATGTATCGACACATTTGGGTC-AAAACCCAGA
* * *
4481946 ATGTATCAATACAATGAAAAATGTATCGATACATTTGGGTCAAAACCTAGA
1 ATGTATCGATACAATGAAAAATGTATCGACACATTTGGGTCAAAACCCAGA
* *
4481997 ATGTATTGTTACAATGAAAAATGTATCGA
1 ATGTATCGATACAATGAAAAATGTATCGA
4482026 TAGATTTTCA
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
51 34 0.49
52 35 0.51
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (51 bp):
ATGTATCGATACAATGAAAAATGTATCGACACATTTGGGTCAAAACCCAGA
Found at i:4482012 original size:51 final size:52
Alignment explanation
Indices: 4481894--4482032 Score: 163
Period size: 51 Copynumber: 2.7 Consensus size: 52
4481884 ATTTACTTGC
* * * * * * *
4481894 ATGTATCGATTCATTGAAGAATGTATCGACATATTTGGGTCAAAAACCCATA
1 ATGTATCAATACAATGAAAAATGTATCGATACATTTGGGTCAAAAACCCAGA
*
4481946 ATGTATCAATACAATGAAAAATGTATCGATACATTTGGGTC-AAAACCTAGA
1 ATGTATCAATACAATGAAAAATGTATCGATACATTTGGGTCAAAAACCCAGA
*** *
4481997 ATGTATTGTTACAATGAAAAATGTATCGATAGATTT
1 ATGTATCAATACAATGAAAAATGTATCGATACATTT
4482033 TCATCCTAGA
Statistics
Matches: 75, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
51 40 0.53
52 35 0.47
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.32
Consensus pattern (52 bp):
ATGTATCAATACAATGAAAAATGTATCGATACATTTGGGTCAAAAACCCAGA
Found at i:4482135 original size:21 final size:21
Alignment explanation
Indices: 4482088--4482142 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
4482078 ACATTTTAGA
* *
4482088 AATGTATCAATACATTCTCTT
1 AATGTATCGATACATTCACTT
*
4482109 -ATGTATTGATACATTCACTT
1 AATGTATCGATACATTCACTT
4482129 AATGTATCGATACA
1 AATGTATCGATACA
4482143 AATTGTAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (21 bp):
AATGTATCGATACATTCACTT
Found at i:4482716 original size:13 final size:13
Alignment explanation
Indices: 4482698--4482722 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4482688 TGTAAACACC
4482698 TAATTCTATCTTG
1 TAATTCTATCTTG
4482711 TAATTCTATCTT
1 TAATTCTATCTT
4482723 TAGGCTTATA
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:0.24, C:0.16, G:0.04, T:0.56
Consensus pattern (13 bp):
TAATTCTATCTTG
Found at i:4484649 original size:21 final size:20
Alignment explanation
Indices: 4484611--4484649 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4484601 TGAAAAATAT
*
4484611 ATTTTTTTCTTAAGTTTTTC
1 ATTTTTTTCTTAAATTTTTC
4484631 ATTTTTTTCTTGAAATTTT
1 ATTTTTTTCTT-AAATTTT
4484650 CCTATTTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.18, C:0.08, G:0.05, T:0.69
Consensus pattern (20 bp):
ATTTTTTTCTTAAATTTTTC
Found at i:4484952 original size:17 final size:18
Alignment explanation
Indices: 4484910--4484952 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4484900 CCAATTAATA
* *
4484910 TTAATTCTAAATTTCTTT
1 TTAATTTTAAATTTCTAT
*
4484928 TTATTTTTAAATTT-TAT
1 TTAATTTTAAATTTCTAT
4484945 TTAATTTT
1 TTAATTTT
4484953 TTATTCATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (18 bp):
TTAATTTTAAATTTCTAT
Found at i:4485307 original size:11 final size:10
Alignment explanation
Indices: 4485288--4485326 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
4485278 TGGAAACTGT
*
4485288 GAGAAAAAAG
1 GAGAAAAAAA
4485298 GAGAAAAAAA
1 GAGAAAAAAA
4485308 GAGAAAAAAA
1 GAGAAAAAAA
4485318 -AGAAAAAAA
1 GAGAAAAAAA
4485327 TAGCTAGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
9 9 0.32
10 19 0.68
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
GAGAAAAAAA
Found at i:4485311 original size:20 final size:19
Alignment explanation
Indices: 4485288--4485326 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
4485278 TGGAAACTGT
*
4485288 GAGAAAAAAGGAGAAAAAAA
1 GAGAAAAAA-AAGAAAAAAA
4485308 GAGAAAAAAAAGAAAAAAA
1 GAGAAAAAAAAGAAAAAAA
4485327 TAGCTAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (19 bp):
GAGAAAAAAAAGAAAAAAA
Found at i:4487084 original size:22 final size:22
Alignment explanation
Indices: 4487058--4487099 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
4487048 GATAAAGTGT
4487058 TTGAAAAAAAAAAAAAAAAATG
1 TTGAAAAAAAAAAAAAAAAATG
4487080 TTGAAAAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAAAAA
4487100 AAATTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (22 bp):
TTGAAAAAAAAAAAAAAAAATG
Found at i:4487131 original size:21 final size:21
Alignment explanation
Indices: 4487107--4487163 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
4487097 AAAAAATTTA
4487107 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
4487128 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
4487149 AATGTATCGATACAT
1 AATGTATCGATACAT
4487164 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:4487243 original size:19 final size:19
Alignment explanation
Indices: 4487219--4487286 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
4487209 AATTCAACAA
4487219 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
4487238 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
4487253 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
4487270 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
4487287 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:4487258 original size:13 final size:13
Alignment explanation
Indices: 4487240--4487264 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4487230 ACATAAGTTT
4487240 TGTATCGATACAA
1 TGTATCGATACAA
4487253 TGTATCGATACA
1 TGTATCGATACA
4487265 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4487262 original size:32 final size:32
Alignment explanation
Indices: 4487221--4487283 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
4487211 TTCAACAATT
*
4487221 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
4487253 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
4487284 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:4487344 original size:13 final size:13
Alignment explanation
Indices: 4487326--4487351 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4487316 CATTTTTCTG
4487326 TGTATCGATACAT
1 TGTATCGATACAT
4487339 TGTATCGATACAT
1 TGTATCGATACAT
4487352 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4487348 original size:33 final size:33
Alignment explanation
Indices: 4487306--4487372 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4487296 GCCAAGGAAA
***
4487306 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
4487339 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
4487372 T
1 T
4487373 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:4489891 original size:52 final size:51
Alignment explanation
Indices: 4489818--4489987 Score: 186
Period size: 52 Copynumber: 3.3 Consensus size: 51
4489808 TTATTTTCGA
*
4489818 GGGGATACTCCAACTCCGGTTTTATCGTT-AAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTAT--TTCAAAACACCAATTTTTCCACAATC
* **
4489870 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTA-TTTCAAAACACCAATTTTTCC-ACAATC
* *
4489922 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTATTT-C-AAAACACCAATTTTTCCACAATC
*
4489974 GAGGATACTCCAAC
1 GGGGATACTCCAAC
4489988 CTCGTTATTT
Statistics
Matches: 100, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
51 14 0.14
52 69 0.69
53 13 0.13
54 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGGTTTTATTTCAAAACACCAATTTTTCCACAATC
Found at i:4490007 original size:28 final size:28
Alignment explanation
Indices: 4489971--4490047 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
4489961 ATTTTTCACA
* * *
4489971 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
4489999 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
4490027 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
4490048 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:4490121 original size:28 final size:29
Alignment explanation
Indices: 4490081--4490135 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
4490071 TCTCATAATT
4490081 AGGGATACTCCAACCCCG-TTATTTTCGA
1 AGGGATACTCCAACCCCGATTATTTTCGA
* *
4490109 AGGGATACTCCAATCCCGATTTTTTTC
1 AGGGATACTCCAACCCCGATTATTTTC
4490136 TAATCATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (29 bp):
AGGGATACTCCAACCCCGATTATTTTCGA
Found at i:4490180 original size:77 final size:78
Alignment explanation
Indices: 4490001--4490203 Score: 223
Period size: 77 Copynumber: 2.6 Consensus size: 78
4489991 GTTATTTCAT
* * * *
4490001 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCC-GATTTATTCCCAAAATAT
* * *
4490066 TGATTTCTCATAAT
65 CGATTTCTCACAAC
** * ** *
4490080 TAGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTT-TTTTC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTATTCCCAAAAT-AT
4490143 CGATTTCTCACAAC
65 CGATTTCTCACAAC
* *
4490157 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCCCG
4490204 TTATTATCTC
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
76 8 0.08
77 52 0.50
78 4 0.04
79 40 0.38
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGATTTATTCCCAAAATATC
GATTTCTCACAAC
Found at i:4496059 original size:20 final size:19
Alignment explanation
Indices: 4496005--4496100 Score: 77
Period size: 20 Copynumber: 4.7 Consensus size: 19
4495995 ACCAAGGAAA
*
4496005 TGTATCGATACATGCTTACAAT
1 TGTATCGATACA---TTACTAT
* * *
4496027 TGTATCAACACATTTCTCAT
1 TGTATCGATACATTACT-AT
4496047 TGTATCGATACATTCACTGA-
1 TGTATCGATACATT-ACT-AT
4496067 TGTATCGATACAATTACTATT
1 TGTATCGATAC-ATTACTA-T
4496088 TGTATCGATACAT
1 TGTATCGATACAT
4496101 CCAAGCAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
19 4 0.07
20 30 0.49
21 17 0.28
22 10 0.16
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATTACTAT
Found at i:4496093 original size:21 final size:22
Alignment explanation
Indices: 4496045--4496099 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
4496035 CACATTTCTC
4496045 ATTGTATCGATAC-ATTCACTG
1 ATTGTATCGATACAATTCACTG
4496066 A-TGTATCGATACAATT-ACT-
1 ATTGTATCGATACAATTCACTG
4496085 ATTTGTATCGATACA
1 A-TTGTATCGATACA
4496100 TCCAAGCAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
19 1 0.03
20 14 0.45
21 16 0.52
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (22 bp):
ATTGTATCGATACAATTCACTG
Found at i:4498526 original size:79 final size:80
Alignment explanation
Indices: 4498420--4498621 Score: 220
Period size: 79 Copynumber: 2.6 Consensus size: 80
4498410 AATTTCTAAA
* * * ** * *
4498420 TTTTTCTTTCCAAAAATATT-GATTTTTCATCTCAAGGATATTCCAACCCTATTATTTCTG-AGA
1 TTTTTATTT-CAAAAATATTAAATTTTTCATCTCAAGGATACTCCAACCCTACCAATTCCGAAG-
4498483 GGATACTCCAA-TCTCG-
64 GGATACTCCAACT-TCGT
* *
4498499 TTTTTATTTCAAAAATATTAAAATTTTCATCTTAAGGATACTCCAACCCTACCAATTCCGAAGGG
1 TTTTTATTTCAAAAATATTAAATTTTTCATCTCAAGGATACTCCAACCCTACCAATTCCGAAGGG
*
4498564 ATACTCCAACTTTGT
66 ATACTCCAACTTCGT
* *
4498579 TTTTTATTTCCAAAATATTAAATTTTTC-T-T-AAGGGTACTCCAA
1 TTTTTATTTCAAAAATATTAAATTTTTCATCTCAAGGATACTCCAA
4498622 TCTCGTTATT
Statistics
Matches: 106, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
77 12 0.11
78 11 0.10
79 54 0.51
80 29 0.27
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (80 bp):
TTTTTATTTCAAAAATATTAAATTTTTCATCTCAAGGATACTCCAACCCTACCAATTCCGAAGGG
ATACTCCAACTTCGT
Found at i:4501699 original size:13 final size:13
Alignment explanation
Indices: 4501681--4501707 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4501671 ACATTATGCT
4501681 TTGTATCGATACA
1 TTGTATCGATACA
4501694 TTGTATCGATACA
1 TTGTATCGATACA
4501707 T
1 T
4501708 GGACAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4508268 original size:23 final size:23
Alignment explanation
Indices: 4508213--4508257 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
4508203 TGCCACCATA
*
4508213 AAATAACCAACCCTATGCTAACCT
1 AAATGACCAACCCTATGCTAA-CT
4508237 AAATG-CCAACCCTAATGCTAA
1 AAATGACCAACCCT-ATGCTAA
4508258 TAATGCACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.42, C:0.31, G:0.07, T:0.20
Consensus pattern (23 bp):
AAATGACCAACCCTATGCTAACT
Found at i:4509557 original size:13 final size:13
Alignment explanation
Indices: 4509539--4509563 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4509529 ATGTTGCACA
4509539 GTATCGATACATT
1 GTATCGATACATT
4509552 GTATCGATACAT
1 GTATCGATACAT
4509564 GACCAAATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:4509663 original size:19 final size:20
Alignment explanation
Indices: 4509635--4509685 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
4509625 TAGCTAAACT
*
4509635 TGTATCGATACA-CACAATA
1 TGTATCGATACACCACAAAA
* *
4509654 TGTATTGATACACCATAAAA
1 TGTATCGATACACCACAAAA
4509674 TGTATCGATACA
1 TGTATCGATACA
4509686 TTGGCCTGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (20 bp):
TGTATCGATACACCACAAAA
Found at i:4511273 original size:9 final size:9
Alignment explanation
Indices: 4511259--4511292 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
4511249 AACCATCAAG
4511259 GATGATGAA
1 GATGATGAA
4511268 GATGATGAA
1 GATGATGAA
*
4511277 GATGATGAT
1 GATGATGAA
4511286 GATGATG
1 GATGATG
4511293 GTGACTCAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.26
Consensus pattern (9 bp):
GATGATGAA
Found at i:4511274 original size:3 final size:3
Alignment explanation
Indices: 4511259--4511292 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
4511249 AACCATCAAG
* *
4511259 GAT GAT GAA GAT GAT GAA GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
4511293 GTGACTCAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:4515861 original size:22 final size:22
Alignment explanation
Indices: 4515818--4515858 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4515808 CAAATTTCTT
4515818 GTTTTTCACTACAAAATACATC
1 GTTTTTCACTACAAAATACATC
4515840 GTTTTTCA-T-CAAAAT-CATC
1 GTTTTTCACTACAAAATACATC
4515859 ATCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (22 bp):
GTTTTTCACTACAAAATACATC
Found at i:4516166 original size:21 final size:21
Alignment explanation
Indices: 4516122--4516163 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
4516112 CCCCTAGGCA
*
4516122 GCACCCACCAGGTCGCGACCG
1 GCACCCACCAGGTCGCAACCG
4516143 GCACCC-CCAGGTCGCAACCG
1 GCACCCACCAGGTCGCAACCG
4516163 G
1 G
4516164 GCAGTCCTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.19, C:0.48, G:0.29, T:0.05
Consensus pattern (21 bp):
GCACCCACCAGGTCGCAACCG
Found at i:4518030 original size:20 final size:19
Alignment explanation
Indices: 4517976--4518030 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
4517966 AAAACCCTGA
* *
4517976 AAAGTATTGATACACATTT
1 AAAGTATCGATACATATTT
*
4517995 AAATGTATCGATACATGTTGT
1 AAA-GTATCGATACATATT-T
4518016 AAAGTATCGATACAT
1 AAAGTATCGATACAT
4518031 TGTATCGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.10
20 24 0.77
21 4 0.13
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.35
Consensus pattern (19 bp):
AAAGTATCGATACATATTT
Found at i:4518037 original size:13 final size:13
Alignment explanation
Indices: 4518019--4518043 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4518009 ATGTTGTAAA
4518019 GTATCGATACATT
1 GTATCGATACATT
4518032 GTATCGATACAT
1 GTATCGATACAT
4518044 GACCAAATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:4518139 original size:19 final size:20
Alignment explanation
Indices: 4518115--4518165 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
4518105 TAGCTAAACT
**
4518115 TGTATCGATACAC-ACAGTA
1 TGTATCGATACACTACAAAA
4518134 TGTATCGATACACTACAAAA
1 TGTATCGATACACTACAAAA
4518154 TGTATCGATACA
1 TGTATCGATACA
4518166 TTGGCCTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (20 bp):
TGTATCGATACACTACAAAA
Found at i:4518955 original size:20 final size:19
Alignment explanation
Indices: 4518902--4518955 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
4518892 TAAGCTTTCA
* *
4518902 GTATCGATACATTGCTCATT
1 GTATCGATACATT-TTCAAT
4518922 GTATCGATACATTTTACAAT
1 GTATCGATACATTTT-CAAT
4518942 GTATCGATACATTT
1 GTATCGATACATTT
4518956 AGGCATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (19 bp):
GTATCGATACATTTTCAAT
Found at i:4521363 original size:51 final size:51
Alignment explanation
Indices: 4521307--4521421 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 51
4521297 TTCTTAATTG
*
4521307 GGGATACTCCAACTCCGATTTTA-TTTCTAAAGCATCGATTTACCACAATC-
1 GGGATACTCCAACTCCGATTTTATTTTC-AAAACATCGATTTACCACAATCA
* * *
4521357 GAGGATACTCCAACTCCGATTTTATTTTCAAAACATCGATTTTCTATAATCA
1 G-GGATACTCCAACTCCGATTTTATTTTCAAAACATCGATTTACCACAATCA
4521409 GGGATACTCCAAC
1 GGGATACTCCAAC
4521422 CCCGTTATTT
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
50 1 0.02
51 52 0.90
52 5 0.09
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGATACTCCAACTCCGATTTTATTTTCAAAACATCGATTTACCACAATCA
Found at i:4521607 original size:51 final size:50
Alignment explanation
Indices: 4521548--4521661 Score: 160
Period size: 51 Copynumber: 2.2 Consensus size: 50
4521538 TCTCGAGGGA
*
4521548 ATACTCCAACCCTGATTTTA-TTTCTAAAATACCAATTT-TCCACAATCGGGG
1 ATACTCCAACCC-GATTTTATTTTC-AAAACACCAATTTCT-CACAATCGGGG
*
4521599 ATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTCTCACAATTGGGG
1 ATACTCCAAC-CCGATTTTATTTTCAAAACACCAATTTCTCACAATCGGGG
4521650 ATACTCCAACCC
1 ATACTCCAACCC
4521662 CATTATTTTC
Statistics
Matches: 58, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
50 2 0.03
51 49 0.84
52 7 0.12
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.32
Consensus pattern (50 bp):
ATACTCCAACCCGATTTTATTTTCAAAACACCAATTTCTCACAATCGGGG
Found at i:4521730 original size:79 final size:78
Alignment explanation
Indices: 4521595--4521820 Score: 283
Period size: 79 Copynumber: 2.9 Consensus size: 78
4521585 TTCCACAATC
* * *
4521595 GGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTCTCACAATTGGGGATACTCCAAC
1 GGGGATACTCCAACTCCGATTTTATTTTCAAAACACCATTTTCT-ATAATCGGGGATACTCCAAC
*
4521660 CCCATTATTTTCGT
65 CCCATTATTTTCGA
* * * *
4521674 GGGGATACTCTAACTCCAATTTTATTTTCAAAATACCGATTTTCTATAATCAGGGATACTCCAAC
1 GGGGATACTCCAACTCCGATTTTATTTTCAAAACACC-ATTTTCTATAATCGGGGATACTCCAAC
*
4521739 CCTATTATTTTCGA
65 CCCATTATTTTCGA
*** * *
4521753 GGGGATACTCCAAC-CTCGATTTTATTTTTGGAACACCAATTTTCCATAATCGGGGATACTCCAG
1 GGGGATACTCCAACTC-CGATTTTATTTTCAAAACACC-ATTTTCTATAATCGGGGATACTCCAA
4521817 CCCC
64 CCCC
4521821 GTTGTTATGT
Statistics
Matches: 125, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
78 1 0.01
79 118 0.94
80 6 0.05
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (78 bp):
GGGGATACTCCAACTCCGATTTTATTTTCAAAACACCATTTTCTATAATCGGGGATACTCCAACC
CCATTATTTTCGA
Found at i:4527170 original size:154 final size:150
Alignment explanation
Indices: 4526720--4527666 Score: 791
Period size: 155 Copynumber: 6.1 Consensus size: 150
4526710 AGAAATGAGA
* * * * ** * * * *
4526720 TGAACCTATCCTAAATGCCCACCTTCGGCATAAAAACGGAC-CTGGTGACGACCTAAGAGTTGGT
1 TGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGGACTC-GATGATAACCTAGGACTCGAT
* * * * *
4526784 TCTTAAAAATTACAAAAATACCCCTTACTAGTATACCTTCGACATGAAAGTATCCTGGTAACCCT
65 T-TTAAAAATTACAAAAATACCCC-TA--GGGATACCTTCGACGTGAAAGTA-CCCGAT-ACCCT
* * *
4526849 AAAGAACTTAAAAAAGA-TATAGATGAGA
124 AAAGGACTT-AAAAAGACTATAAATG-GG
* * * * *
4526877 TTAACCTATCCTAAATACCCACCTTTC-GCATGAAAGCGGACCCGATGACAACCTAGGAC-CCAG
1 TGAACCTATCCTAAATACCCACC-TTCAGCATAAAAGCGGACTCGATGATAACCTAGGACTCGA-
* ** * * * *
4526940 TTCTAGGAAAATTATGAAAATGCCCTCAAGGGATACCTTCGACGTAAAAGTACCTGATACCTCTA
64 TTTTA--AAAATTACAAAAATACCC-CTAGGGATACCTTCGACGTGAAAGTACCCGATACC-CTA
* ***
4527005 AAAGACTTAAAAAGGA-TACGGATGTGG
125 AAGGACTTAAAAA-GACTATAAATG-GG
* *
4527032 TGAACCTATCCTAAATACCCACCTT-TGACATAAAAGCAGACTCGATGATAACCTAGGACTCGAT
1 TGAACCTATCCTAAATACCCACCTTCAG-CATAAAAGCGGACTCGATGATAACCTAGGACTCGAT
* *
4527096 TTTATAAAATTACAAAAATACCCCTAGGGGATACCTTCAACGT-AATAGTGCCCGATACTCCTAA
65 TTTA-AAAATTACAAAAATACCCCTA-GGGATACCTTCGACGTGAA-AGTACCCGATAC-CCTAA
* * *
4527160 AGGACTT-AAAAGATTAGAAATGTGA
126 AGGACTTAAAAAGACTATAAATG-GG
* * * * * * *
4527185 TGAACCTATCCCAAATCCCCACCTTCAGCATAAAAGCGGACTCGATGATGACCTAAGAGTTGGTT
1 TGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGGACTCGATGATAACCTAGGACTCGATT
* * * * *
4527250 CTAAAAAATTACAAAAATACCCCTAGGGATACCTTCGACGTGAAAGTATCTGGTACCCCTAAAGA
66 -TTAAAAATTACAAAAATACCCCTAGGGATACCTTCGACGTGAAAGTACCCGATA-CCCTAAAGG
* *
4527315 ACTTACAAAAAACTATAAAAGGG
129 ACTTA-AAAAGACTATAAATGGG
* *
4527338 ATGAACCTATCCTAAATACCCATCTTCAGCATAAAAGCGGACT-TAGTGATAACCTAGGACTCGA
1 -TGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGGACTCGA-TGATAACCTAGGACTCGA
* * * *
4527402 TTTTGAAAAATTACAAAAATACCCTTTAGGGATACCTTCGATGTGAAAGTATCTCGGTACCCTTA
64 TTTT-AAAAATTACAAAAATACCC-CTAGGGATACCTTCGACGTGAAAGTA-CCCGATACCC-TA
4527467 AAGGACTTAAAAAGGACTATAAAATGGG
125 AAGGACTTAAAAA-GACTAT-AAATGGG
* * * *
4527495 TGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCAGACT-GGTGATAACCTAGAACTCGGTT
1 TGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGGACTCGATGATAACCTAGGACTCGATT
* ** * * *
4527559 CTGAAAAATTATGAAAATACCCGTAAGGGATACCTTCGACGTGAAAGTATCTCGGTACCTCTAAA
66 -TTAAAAATTACAAAAATACCCCT-AGGGATACCTTCGACGTGAAAGTA-CCCGATACC-CTAAA
* * *
4527624 GAACTT-AAAAGAACTATAAAAGCGA
127 GGACTTAAAAAG-ACTATAAATG-GG
4527649 TGAACCTATCCTAAATAC
1 TGAACCTATCCTAAATAC
4527667 TCACTGTAGA
Statistics
Matches: 656, Mismatches: 100, Indels: 71
0.79 0.12 0.09
Matches are distributed among these distances:
152 35 0.05
153 101 0.15
154 177 0.27
155 185 0.28
156 84 0.13
157 53 0.08
158 20 0.03
159 1 0.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (150 bp):
TGAACCTATCCTAAATACCCACCTTCAGCATAAAAGCGGACTCGATGATAACCTAGGACTCGATT
TTAAAAATTACAAAAATACCCCTAGGGATACCTTCGACGTGAAAGTACCCGATACCCTAAAGGAC
TTAAAAAGACTATAAATGGG
Found at i:4527578 original size:462 final size:464
Alignment explanation
Indices: 4526709--4527600 Score: 1146
Period size: 462 Copynumber: 1.9 Consensus size: 464
4526699 CTAAAAAGGA
* * * *
4526709 TAGAAATGAGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAACGGACCTGGTGACGACCT
1 TAGAAATGAGATGAACCTATCCCAAATCCCCACCTTCAGCATAAAAACGGACCTGATGACGACCT
* *
4526774 AAGAGTTGGTTCTTAAAAATTACAAAAATACCCCTTACTAGTATACCTTCGACATGAAAGTATCC
66 AAGAGTTGGTTCTAAAAAATTACAAAAATACCCCTTAC-AGGATACCTTCGACATGAAAGTATCC
* * *
4526839 TGGTAACCCTAAAGAACTTAAAAAAGATATAGATGAGATTAACCTATCCTAAATACCCACCTTTC
130 TGGTAACCCTAAAGAACTTAAAAAAGATATAAAAGAGATGAACCTATCCTAAATACCCACCTTTC
* * * ** *
4526904 GCATGAAAGCGGACCCGATGACAACCTAGGACCCAGTTCTAGGAAAATTATGAAAATGCCCTCAA
195 GCATAAAAGCGGACCAGATGACAACCTAGGACCCAGTTCTAGAAAAATTACAAAAATACCCTCAA
***
4526969 GGGATACCTTCGACGTAAAAGTACCTGATACCTCTAAAAGACTTAAAAAGGATACGGATGTGGTG
260 GGGATACCTTCGACGTAAAAGTACCTGATACCTCTAAAAGACTTAAAAAGGATAAAAATGTGGTG
* * *
4527034 AACCTATCCTAAATACCCACCTTTGACATAAAAGCAGACTCGATGATAACCTAGGACTCGATTTT
325 AACCTATCCTAAATACCCACCTTAGACATAAAAGCAGACTCGATGATAACCTAGAACTCGATTTG
*
4527099 ATAAAATTACAAAAATACCCCTAGGGGATACCTTCAACGTAATAGTGCCCGATACTCCTAAAGGA
390 ATAAAATTACAAAAATACCCCTAAGGGATACCTTCAACGTAATAGTGCCCGATACTCCTAAAGGA
4527164 CTTAAAAGAT
455 CTTAAAAGAT
* * *
4527174 TAGAAATGTGATGAACCTATCCCAAATCCCCACCTTCAGCATAAAAGCGGA-CTCGATGATGACC
1 TAGAAATGAGATGAACCTATCCCAAATCCCCACCTTCAGCATAAAAACGGACCT-GATGACGACC
* *
4527238 TAAGAGTTGGTTCTAAAAAATTACAAAAATACCCC-TA-GGGATACCTTCGACGTGAAAGTAT-C
65 TAAGAGTTGGTTCTAAAAAATTACAAAAATACCCCTTACAGGATACCTTCGACATGAAAGTATCC
* * *
4527300 TGGTACCCCTAAAGAACTTACAAAAA-ACTATAAAAGGGATGAACCTATCCTAAATACCCATC-T
130 TGGTAACCCTAAAGAACTTA-AAAAAGA-TATAAAAGAGATGAACCTATCCTAAATACCCACCTT
* * * *
4527363 TCAGCATAAAAGCGGACTTAG-TGATAACCTAGGACTC-GATT-TTGAAAAATTACAAAAATACC
193 TC-GCATAAAAGCGGAC-CAGATGACAACCTAGGACCCAG-TTCTAGAAAAATTACAAAAATACC
** * * * * *
4527425 CTTTAGGGATACCTTCGATGTGAAAGTATCTCGGTACC-CTTAAAGGACTTAAAAAGGACTATAA
255 CTCAAGGGATACCTTCGACGTAAAAGTACCT-GATACCTC-TAAAAGACTTAAAAAGGA-TA-AA
*
4527489 AATG-GGTGAACCTATCCTAAATACCCACCTTCAG-CATAAAAGCAGACT-GGTGATAACCTAGA
316 AATGTGGTGAACCTATCCTAAATACCCACCTT-AGACATAAAAGCAGACTCGATGATAACCTAGA
* ** * *
4527551 ACTCGGTTCTGA-AAAATTATGAAAATACCCGTAAGGGATACCTTCGACGT
380 ACTCGATT-TGATAAAATTACAAAAATACCCCTAAGGGATACCTTCAACGT
4527601 GAAAGTATCT
Statistics
Matches: 368, Mismatches: 47, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
461 68 0.18
462 158 0.43
463 46 0.12
464 8 0.02
465 88 0.24
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.24
Consensus pattern (464 bp):
TAGAAATGAGATGAACCTATCCCAAATCCCCACCTTCAGCATAAAAACGGACCTGATGACGACCT
AAGAGTTGGTTCTAAAAAATTACAAAAATACCCCTTACAGGATACCTTCGACATGAAAGTATCCT
GGTAACCCTAAAGAACTTAAAAAAGATATAAAAGAGATGAACCTATCCTAAATACCCACCTTTCG
CATAAAAGCGGACCAGATGACAACCTAGGACCCAGTTCTAGAAAAATTACAAAAATACCCTCAAG
GGATACCTTCGACGTAAAAGTACCTGATACCTCTAAAAGACTTAAAAAGGATAAAAATGTGGTGA
ACCTATCCTAAATACCCACCTTAGACATAAAAGCAGACTCGATGATAACCTAGAACTCGATTTGA
TAAAATTACAAAAATACCCCTAAGGGATACCTTCAACGTAATAGTGCCCGATACTCCTAAAGGAC
TTAAAAGAT
Found at i:4528169 original size:20 final size:20
Alignment explanation
Indices: 4528146--4528250 Score: 102
Period size: 20 Copynumber: 4.7 Consensus size: 20
4528136 AAGTACCCAG
4528146 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
*
4528166 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
4528186 ATGTATCGATACATTCTGTCTTTTTACCCAA
1 ATGTATCGATACA-------TTTTT---C-A
4528217 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
4528237 ATGTATCGATACAT
1 ATGTATCGATACAT
4528251 CTAGTTAAAA
Statistics
Matches: 72, Mismatches: 2, Indels: 22
0.75 0.02 0.23
Matches are distributed among these distances:
20 47 0.65
21 1 0.01
24 5 0.07
27 4 0.06
30 1 0.01
31 14 0.19
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:4529139 original size:20 final size:22
Alignment explanation
Indices: 4529101--4529140 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
4529091 AGCCGTTGAC
*
4529101 CATGCATTTGTTTATTATGTTT
1 CATGCATTTGTTTAATATGTTT
4529123 CATGCA-TT-TTTAATATGT
1 CATGCATTTGTTTAATATGT
4529141 CCAACATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.23, C:0.10, G:0.12, T:0.55
Consensus pattern (22 bp):
CATGCATTTGTTTAATATGTTT
Found at i:4532640 original size:13 final size:13
Alignment explanation
Indices: 4532622--4532649 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4532612 ATCACTTAAA
4532622 AATCCCAAAATCC
1 AATCCCAAAATCC
4532635 AATCCCAAAATCC
1 AATCCCAAAATCC
4532648 AA
1 AA
4532650 GCAAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.36, G:0.00, T:0.14
Consensus pattern (13 bp):
AATCCCAAAATCC
Found at i:4533251 original size:21 final size:20
Alignment explanation
Indices: 4533224--4533271 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
4533214 AATTAATTCA
*
4533224 TAAAATTATACTATAAAAAT
1 TAAAATTAAACTATAAAAAT
* *
4533244 TAACAATTAAATTGTAAAAAT
1 TAA-AATTAAACTATAAAAAT
4533265 TAAAATT
1 TAAAATT
4533272 TTAAAATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (20 bp):
TAAAATTAAACTATAAAAAT
Found at i:4535632 original size:79 final size:77
Alignment explanation
Indices: 4535515--4535846 Score: 261
Period size: 79 Copynumber: 4.2 Consensus size: 77
4535505 AATTTCTAAA
* * * * * *
4535515 TTTTTCTTTCCAAAAATATTGATTTTTCATCTCGGGGATATTCTAAGCCCGTTATTT-TCGAGAG
1 TTTTTATTT-CAAAAATATTAATTTTTCATCTCAGGGATACTCCAA-CCCATTATTTCT-GAGAG
4535579 GATACTCCAATCC-CC
63 GATACTCCAA-CCTCC
* * ** * *
4535594 TTTTTATTTCAAAAATATTAAAATTTTT-ATCTCAGGGATAGTCTAACCCCACCAATTCTGAGGG
1 TTTTTATTTCAAAAATATT--AATTTTTCATCTCAGGGATACTCCAA-CCCATTATTTCTGAGAG
**
4535658 GATACTCCAACCTTAT
63 GATACTCCAACC-TCC
* * * * * *
4535674 TTTTTATTTCCAAAATATTAAATTTTTC-T-T-AGGGGTACCCCAACCACGTTATTT-TCAAAGG
1 TTTTTATTTCAAAAATATT-AATTTTTCATCTCAGGGATACTCCAACC-CATTATTTCTGAGAGG
*
4535735 AATACTCC-ACCATCA
64 -ATACTCCAACC-TCC
*
4535750 TTTTTATTTCTAAAAATATTGATTTTTCATCTCAGGGATACTCCAATCCCATTATTTCTGAGA-G
1 TTTTTATTTC-AAAAATATTAATTTTTCATCTCAGGGATACTCCAA-CCCATTATTTCTGAGAGG
4535814 ATACTCCAATCC-CC
64 ATACTCCAA-CCTCC
4535828 TTTTTATTTCAAAAATATT
1 TTTTTATTTCAAAAATATT
4535847 TCATCTCGGG
Statistics
Matches: 202, Mismatches: 35, Indels: 34
0.75 0.13 0.13
Matches are distributed among these distances:
76 27 0.13
77 38 0.19
78 32 0.16
79 73 0.36
80 32 0.16
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (77 bp):
TTTTTATTTCAAAAATATTAATTTTTCATCTCAGGGATACTCCAACCCATTATTTCTGAGAGGAT
ACTCCAACCTCC
Found at i:4540196 original size:77 final size:77
Alignment explanation
Indices: 4540060--4540462 Score: 316
Period size: 78 Copynumber: 5.2 Consensus size: 77
4540050 AGTGAAAACG
* ** * ** *
4540060 GGGTTGGAGTATCCCCGATGGTGAAAAATTGATATTTTAGAAA-AAAATGA-GATTAGAGTATCC
1 GGGTTGGAGTATCCCC-A-GATGAAAAATCAATATTTTTGAAATAAAAACAGGGTTAGAGTATCC
4540123 CCTC-AAAATAAT-
64 CCTCAAAAATAATA
* * * * * *
4540135 GAGGCTAGAGTATCCCCAGATGAAAATTTTAATATTTTTGAAATAAAAACAGGGTTGGAGTATCT
1 G-GGTTGGAGTATCCCCAGATGAAAA-ATCAATATTTTTGAAATAAAAACAGGGTTAGAGTATCC
*
4540200 CTTCAAAAATAATA
64 CCTCAAAAATAATA
* * *
4540214 GGGTTGGAGTATCCTCGAGATGAAAAATCGATA-TTTTGAAAGTAAAACCAGGGTTAGAGTATCC
1 GGGTTGGAGTATCC-CCAGATGAAAAATCAATATTTTTGAAA-TAAAAACAGGGTTAGAGTATCC
** * **
4540278 TTTCGAAAATAACG
64 CCTCAAAAATAATA
** * * * * **
4540292 GGGTTGGAGTATCTCTAAGTTGAAAATTTTAATATTTTTGAAA-AAGAATGGGGTTAGAGTATCC
1 GGGTTGGAGTATC-CCCAGATGAAAA-ATCAATATTTTTGAAATAAAAACAGGGTTAGAGTATCC
*
4540356 CCTCAGAAATAATA
64 CCTCAAAAATAATA
* * * * *
4540370 GGGTTGGAATATCCCCAAGATGAAAAATCAATATTTTGGAAGTAAAAACAGGGTTATAGTATCCA
1 GGGTTGGAGTATCCCC-AGATGAAAAATCAATATTTTTGAAATAAAAACAGGGTTAGAGTATCCC
** * *
4540435 CTC-GGATTTATA
65 CTCAAAAATAATA
4540447 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
4540463 TAAAATGAAA
Statistics
Matches: 257, Mismatches: 58, Indels: 24
0.76 0.17 0.07
Matches are distributed among these distances:
74 7 0.03
75 15 0.06
76 18 0.07
77 55 0.21
78 138 0.54
79 16 0.06
80 8 0.03
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (77 bp):
GGGTTGGAGTATCCCCAGATGAAAAATCAATATTTTTGAAATAAAAACAGGGTTAGAGTATCCCC
TCAAAAATAATA
Found at i:4540352 original size:156 final size:155
Alignment explanation
Indices: 4540060--4540433 Score: 432
Period size: 156 Copynumber: 2.4 Consensus size: 155
4540050 AGTGAAAACG
* * ** *
4540060 GGGTTGGAGTATCCCCGATGGTGAAAAATTGATATTTTAGAAA--AAAATGA-GATTAGAGTATC
1 GGGTTGGAGTATCCCCGA-GATGAAAAATCGATATTTT-GAAAGTAAAAACAGGGTTAGAGTATC
* *
4540122 CCCTCAAAATAATGAGGCTAGAGTATCCCCAGATGAAAATTTTAATATTTTTGAAATAAAAACAG
64 CCCTCAAAATAACGAGGCTAGAGTATCCCAAGATGAAAATTTTAATATTTTTGAAATAAAAACAG
* * *
4540187 GGTTGGAGTATCTCTTCAAAAATAATA
129 GGTTAGAGTATCCCCTCAAAAATAATA
* * *
4540214 GGGTTGGAGTATCCTCGAGATGAAAAATCGATATTTTGAAAGTAAAACCAGGGTTAGAGTATCCT
1 GGGTTGGAGTATCCCCGAGATGAAAAATCGATATTTTGAAAGTAAAAACAGGGTTAGAGTATCCC
* * * * * * * **
4540279 TTCGAAAATAACGGGGTTGGAGTATCTCTAAGTTGAAAATTTTAATATTTTTGAAA-AAGAATGG
66 CTC-AAAATAACGAGGCTAGAGTATC-CCAAGATGAAAATTTTAATATTTTTGAAATAAAAACAG
*
4540343 GGTTAGAGTATCCCCTCAGAAATAATA
129 GGTTAGAGTATCCCCTCAAAAATAATA
* * * * *
4540370 GGGTTGGAATATCCCCAAGATGAAAAATCAATATTTTGGAAGTAAAAACAGGGTTATAGTATCC
1 GGGTTGGAGTATCCCCGAGATGAAAAATCGATATTTTGAAAGTAAAAACAGGGTTAGAGTATCC
4540434 ACTCGGATTT
Statistics
Matches: 186, Mismatches: 29, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
152 4 0.02
153 17 0.09
154 22 0.12
155 14 0.08
156 103 0.55
157 26 0.14
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.29
Consensus pattern (155 bp):
GGGTTGGAGTATCCCCGAGATGAAAAATCGATATTTTGAAAGTAAAAACAGGGTTAGAGTATCCC
CTCAAAATAACGAGGCTAGAGTATCCCAAGATGAAAATTTTAATATTTTTGAAATAAAAACAGGG
TTAGAGTATCCCCTCAAAAATAATA
Found at i:4540472 original size:156 final size:157
Alignment explanation
Indices: 4540112--4540473 Score: 421
Period size: 156 Copynumber: 2.3 Consensus size: 157
4540102 AAAAATGAGA
* * * *
4540112 TTAGAGTATCCCCTC-AAAATAATGAGGCTAGAGTATCCCC--AGATGAAAATTTTAATATTTTT
1 TTAGAGTATCCACTCGAAAATAACG-GGTTGGAGTATCCCCTAAGATGAAAATTTTAATATTTTT
* * * * * *
4540174 GAAATAAAAACAGGGTTGGAGTATCTCTTCAAAAATAATAGGGTTGGAGTATCCTCGAGATGAAA
65 GAAATAAAAACAGGGTTAGAGTATCCCCTCAAAAATAATAGGGTTGGAATATCCCCAAGATGAAA
* *
4540239 AATCGATATTTTGAAAGTAAAACCAGGG
130 AATCAATATTTTGAAAGTAAAAACAGGG
** * *
4540267 TTAGAGTATCCTTTCGAAAATAACGGGGTTGGAGTAT-CTCTAAGTTGAAAATTTTAATATTTTT
1 TTAGAGTATCCACTCGAAAATAAC-GGGTTGGAGTATCCCCTAAGATGAAAATTTTAATATTTTT
* ** *
4540331 GAAA-AAGAATGGGGTTAGAGTATCCCCTCAGAAATAATAGGGTTGGAATATCCCCAAGATGAAA
65 GAAATAAAAACAGGGTTAGAGTATCCCCTCAAAAATAATAGGGTTGGAATATCCCCAAGATGAAA
*
4540395 AATCAATATTTTGGAAGTAAAAACAGGG
130 AATCAATATTTTGAAAGTAAAAACAGGG
* * ** *
4540423 TTATAGTATCCACTCGGATTTATA-GGGTTGGAGTATCCCCTAAAATGAAAA
1 TTAGAGTATCCACTCGAAAATA-ACGGGTTGGAGTATCCCCTAAGATGAAAA
4540474 ATTGGATGCT
Statistics
Matches: 172, Mismatches: 29, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
155 27 0.16
156 118 0.69
157 27 0.16
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (157 bp):
TTAGAGTATCCACTCGAAAATAACGGGTTGGAGTATCCCCTAAGATGAAAATTTTAATATTTTTG
AAATAAAAACAGGGTTAGAGTATCCCCTCAAAAATAATAGGGTTGGAATATCCCCAAGATGAAAA
ATCAATATTTTGAAAGTAAAAACAGGG
Found at i:4544338 original size:20 final size:20
Alignment explanation
Indices: 4544313--4544352 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4544303 CATTTTAGGC
4544313 ATGTATCAATACATTCACTT
1 ATGTATCAATACATTCACTT
* *
4544333 ATGTATCGATACATTTACTT
1 ATGTATCAATACATTCACTT
4544353 TTTGCATCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.42
Consensus pattern (20 bp):
ATGTATCAATACATTCACTT
Found at i:4546550 original size:24 final size:24
Alignment explanation
Indices: 4546504--4546550 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
4546494 TGAACAACGA
* *
4546504 TGAACAGTGATGAGCAGTGATATG
1 TGAACAGTGATGAACAGTAATATG
* *
4546528 TGAATAGTGATGAATAGTAATAT
1 TGAACAGTGATGAACAGTAATAT
4546551 ATCAATTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.38, C:0.04, G:0.28, T:0.30
Consensus pattern (24 bp):
TGAACAGTGATGAACAGTAATATG
Found at i:4546648 original size:32 final size:33
Alignment explanation
Indices: 4546607--4546671 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
4546597 GCAATTCATG
*
4546607 ATGTATCGATAC-CAAGAACACGTATCGATACA
1 ATGTATCGATACTAAAGAACACGTATCGATACA
* *
4546639 ATGTATCGATACTAAATAATACGTATCGATACA
1 ATGTATCGATACTAAAGAACACGTATCGATACA
4546672 TCTAGGTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (33 bp):
ATGTATCGATACTAAAGAACACGTATCGATACA
Found at i:4550786 original size:21 final size:21
Alignment explanation
Indices: 4550762--4550801 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4550752 GTTTTTCAAT
*
4550762 TTTTGTTGTTTGCCCTTTTGA
1 TTTTGTTCTTTGCCCTTTTGA
* *
4550783 TTTTTTTCTTTGCTCTTTT
1 TTTTGTTCTTTGCCCTTTT
4550802 TCATTTTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.03, C:0.15, G:0.12, T:0.70
Consensus pattern (21 bp):
TTTTGTTCTTTGCCCTTTTGA
Found at i:4550802 original size:22 final size:21
Alignment explanation
Indices: 4550754--4550811 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 21
4550744 GGCATCTTGT
*
4550754 TTTTCAATTTTTGTTGTTTGCCC
1 TTTTC-ATTTTT-TTCTTTGCCC
* *
4550777 TTTTGATTTTTTTCTTTGCTCT
1 TTTTCATTTTTTTCTTTGC-CC
4550799 TTTTCATTTTTTT
1 TTTTCATTTTTTT
4550812 GAAATTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 7 0.23
22 19 0.63
23 4 0.13
ACGTcount: A:0.07, C:0.14, G:0.09, T:0.71
Consensus pattern (21 bp):
TTTTCATTTTTTTCTTTGCCC
Found at i:4561242 original size:28 final size:27
Alignment explanation
Indices: 4561183--4561260 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 27
4561173 TTGGAGATAA
*
4561183 TAACGGGGTTGGAGTGTTCCCTCAGAAG
1 TAACGGGGTTGGAGT-ATCCCTCAGAAG
*
4561211 TAACGGGGTTGGAGTATCCC-CGATGAAT
1 TAACGGGGTTGGAGTATCCCTC-A-GAAG
*
4561239 TAACGAGGTTGGAGTA-CCCTCA
1 TAACGGGGTTGGAGTATCCCTCA
4561261 ATTGTGAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
26 1 0.02
27 9 0.20
28 34 0.77
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (27 bp):
TAACGGGGTTGGAGTATCCCTCAGAAG
Found at i:4561306 original size:52 final size:51
Alignment explanation
Indices: 4561245--4561578 Score: 212
Period size: 51 Copynumber: 6.4 Consensus size: 51
4561235 GAATTAACGA
* *
4561245 GGTTGGAGTA-CCCTCAATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCC-CGATTATGAAAAATTGGTA-TTTTGGAAATAAAATCGG
* * * * * *
4561297 TGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTATTTTGGAAATAAAATCGG
*** * *
4561349 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTTGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGG
* ** ** * *
4561400 GGTTGGAGTATCCCCTCGGA-AAT-AACAGGGTTGGAGTATCCT--CAATGATTAA-CGG
1 GGTTGGAGTAT-CCC-C-GATTATGAA-A-AATT-G-GTATTTTGGAAAT-A-AAATCGG
* * *
4561455 GGTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTGTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAA-AAATTGGT-ATT-TTGGAAATAAAATCGG
* * * * *
4561509 AGTTGGAGTATCCCCGATTATAAAAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGG
* * *
4561560 AGTTGGAATATCCTCGATT
1 GGTTGGAGTATCCCCGATT
4561579 GTGGAGAATT
Statistics
Matches: 213, Mismatches: 51, Indels: 37
0.71 0.17 0.12
Matches are distributed among these distances:
51 67 0.31
52 58 0.27
53 31 0.15
54 36 0.17
55 16 0.08
56 5 0.02
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGG
Found at i:4561545 original size:211 final size:210
Alignment explanation
Indices: 4561187--4561578 Score: 565
Period size: 211 Copynumber: 1.9 Consensus size: 210
4561177 AGATAATAAC
* * * * *
4561187 GGGGTTGGAGTGTTCCCTCAGAAGTAACGGGGTTGGAGTATCCCCGATGAATTAACGAGGTTGGA
1 GGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCAATGAATTAACGAGGTTGGA
*
4561252 GTACCCTCAATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGTGTTGGAGTATCCCCGATTA
66 GTACCCTCAATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTA
* * *
4561317 AAGGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATCAATA
131 AA-GAAAATTAGTGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTATGAAAAATCAATA
4561382 TTTTGGAAATAAAGTT
195 TTTTGGAAATAAAGTT
* * *
4561398 GGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCTCAATG-ATTAACGGGGTTGGA
1 GGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCAATGAATTAACGAGGTTGGA
* * *
4561462 GTGTCCC-CGATTGTGAAGAAATTGGTGTTTGTTGGAAATAAAATCGGAGTTGGAGTATCCCCGA
66 GT-ACCCTCAATTGTGAA-AAATTGGTATTT-TTGGAAATAAAATCGGAGTTGGAGTATCCCCGA
* *
4561526 TTATAA-AAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCTCGATT
128 TTA-AAGAAAATTAGTGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATT
4561579 GTGGAGAATT
Statistics
Matches: 160, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
210 25 0.16
211 98 0.61
212 35 0.22
213 2 0.01
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (210 bp):
GGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCAATGAATTAACGAGGTTGGA
GTACCCTCAATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTA
AAGAAAATTAGTGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTATGAAAAATCAATAT
TTTGGAAATAAAGTT
Found at i:4564020 original size:19 final size:19
Alignment explanation
Indices: 4563996--4564095 Score: 80
Period size: 19 Copynumber: 5.9 Consensus size: 19
4563986 CAGTAGCTAA
*
4563996 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
4564015 TTATGTATCGATAC---A-
1 TTATGTATCGATACAAAAC
4564030 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
* * *
4564047 ATATGTATCCAT---ATA-
1 TTATGTATCGATACAAAAC
4564062 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
4564079 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
4564096 TTGTTGAATT
Statistics
Matches: 65, Mismatches: 4, Indels: 24
0.70 0.04 0.26
Matches are distributed among these distances:
13 19 0.29
14 2 0.03
16 6 0.09
18 2 0.03
19 36 0.55
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:4564036 original size:13 final size:13
Alignment explanation
Indices: 4564018--4564042 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4564008 ACAATACTTA
4564018 TGTATCGATACAT
1 TGTATCGATACAT
4564031 TGTATCGATACA
1 TGTATCGATACA
4564043 AAACATATGT
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4564040 original size:32 final size:32
Alignment explanation
Indices: 4563999--4564093 Score: 154
Period size: 32 Copynumber: 3.0 Consensus size: 32
4563989 TAGCTAATTA
*
4563999 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
* * *
4564031 TGTATCGATACAAAACATATGTATCCATATAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
4564063 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
4564094 AATTGTTGAA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:4565010 original size:55 final size:54
Alignment explanation
Indices: 4564914--4565700 Score: 696
Period size: 59 Copynumber: 13.9 Consensus size: 54
4564904 ATAAAGTGTA
* * ** *
4564914 TCCTGCTCTTTGAGGACTAAAAAGTGCCATCAACTCATGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
4564969 TTCTGGTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
*
4565024 TCCTGCTCTTTGA-G---G--A-TGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * *
4565071 TCCTGCTCTTTGGGGACTGGAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGGG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
4565126 TCCTGCTCTTTGGGGACTGAAAAATGCCACCAACTTGTGTGGGCTTCGAAAGGCG
1 TCCTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
4565181 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
* * *
4565242 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTAG-GTGGGCTTTAAAAGAAAATGTG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTT-GTGTGGGCTTT----G-AAAGGCG
*
4565301 TCCCGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* *
4565360 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* * *
4565419 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* *
4565478 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTTAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGC-TTT---G-AAAGGCG
* * * *
4565537 TCCCGCTTTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGTTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* * *
4565596 TCCCGCTCTTTAAGGACTGAATGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
* *
4565655 TCCCGCTCTTTGAGGACT-AAAGGTGCCACCAGCTTGTGTGGGCTTT
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT
4565701 TAAAAGAAAA
Statistics
Matches: 665, Mismatches: 38, Indels: 54
0.88 0.05 0.07
Matches are distributed among these distances:
47 40 0.06
48 4 0.01
50 1 0.00
52 1 0.00
54 8 0.01
55 178 0.27
56 4 0.01
58 8 0.01
59 366 0.55
60 27 0.04
61 23 0.03
64 5 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (54 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:4565061 original size:47 final size:48
Alignment explanation
Indices: 4564991--4565227 Score: 208
Period size: 55 Copynumber: 4.5 Consensus size: 48
4564981 AGGACTGGAA
4564991 AATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGA-GG
1 AATGCCACCAACTTGTGTGGGCTTTAA-AGGTGTCCTGCTCTTTGACGG
4565039 -ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGG
1 AATGCCACCAACTTGTGTGGGCTTT-AAAGGTGTCCTGCTCTTT---GAC-GG
* * *
4565091 AAAATGCCACCAACTTGTGTGGGCTTCGAAAGGGGTCCTGCTCTTTGGGGACTGAAA
1 --AATGCCACCAACTTGTGTGGGCTT-TAAAGGTGTCCTGCTCTTT---GAC-G--G
* * *
4565148 AATGCCACCAACTTGTGTGGGCTTCGAAAGGCGTCCTGCTCTTTGGGGACTGA
1 AATGCCACCAACTTGTGTGGGCTT-TAAAGGTGTCCTGCTCTTT---GAC-GG
4565201 AAGGTGCCACCAACTTGTGTGGGCTTT
1 AA--TGCCACCAACTTGTGTGGGCTTT
4565228 GAAAAGAAAA
Statistics
Matches: 170, Mismatches: 5, Indels: 22
0.86 0.03 0.11
Matches are distributed among these distances:
47 40 0.24
48 2 0.01
50 2 0.01
52 2 0.01
53 3 0.02
55 121 0.71
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.28
Consensus pattern (48 bp):
AATGCCACCAACTTGTGTGGGCTTTAAAGGTGTCCTGCTCTTTGACGG
Found at i:4565324 original size:59 final size:59
Alignment explanation
Indices: 4565040--4565732 Score: 941
Period size: 59 Copynumber: 11.9 Consensus size: 59
4565030 TCTTTGAGGA
* * * **
4565040 TGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTCCTGCTCTTTGGGGACTGGAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT-GAAGG
* * * * **
4565095 TGCCACCAACTTGTGTGGGC-TT---CG-AAAGGGGTCCTGCTCTTTGGGGACTGAAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAGG
* * *
4565150 TGCCACCAACTTGTGTGGGC-TT---CG-AAAGGCGTCCTGCTCTTTGGGGACTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTG-AAGG
* * *
4565205 TGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
* * *
4565265 TGCCACCAACTTAG-GTGGGCTTTAAAAGAAAATGTGTCCCGCTCTTTGAGGACTAAAGG
1 TGCCACCAACTT-GTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
4565324 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
4565383 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
*
4565442 TGCCACCAACTTGTATGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
* *
4565501 TGCCACCAACTTGTGTGGGCTTTTAAAGAAAAGGCGTCCCGCTTTTTGAGGACTGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
* * *
4565560 TGCCACCAACTTGTGTGGGTTTTAAAAGAAAAGGCGTCCCGCTCTTTAAGGACTGAATG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
*
4565619 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
* * **
4565678 TGCCACCAGCTTGTGTGGGCTTTTAAAAGAAAAGGCATCTTGCTCTTTGAGGACT
1 TGCCACCAACTTGTGTGGGC-TTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACT
4565733 AAAAAGCGGA
Statistics
Matches: 594, Mismatches: 33, Indels: 17
0.92 0.05 0.03
Matches are distributed among these distances:
54 3 0.01
55 121 0.20
56 2 0.00
58 1 0.00
59 386 0.65
60 57 0.10
61 24 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (59 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTTTGAGGACTGAAGG
Found at i:4566709 original size:1 final size:1
Alignment explanation
Indices: 4566699--4566759 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
4566689 CTTAAGCAGA
* * * * * * * *
4566699 TTTTTCTTTTTTTTTTTCTTTGTTTTGTTTTTTTGTTTTTCTTGTTTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4566760 GAAGAGAAGG
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.87
Consensus pattern (1 bp):
T
Found at i:4566724 original size:9 final size:8
Alignment explanation
Indices: 4566705--4566749 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
4566695 CAGATTTTTC
4566705 TTTT-TTT
1 TTTTGTTT
*
4566712 TTTTCTTT
1 TTTTGTTT
4566720 GTTTTGTTT
1 -TTTTGTTT
4566729 TTTTGTTT
1 TTTTGTTT
4566737 TTCTTGTTT
1 TT-TTGTTT
4566746 TTTT
1 TTTT
4566750 TTTCTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
7 4 0.12
8 15 0.44
9 15 0.44
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (8 bp):
TTTTGTTT
Found at i:4566724 original size:22 final size:20
Alignment explanation
Indices: 4566699--4566759 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 20
4566689 CTTAAGCAGA
4566699 TTTTTCTTTTTTTTTTTCTTTG
1 TTTTT-TTTTTTTTTTTC-TTG
4566721 TTTTGTTTTTTTGTTTTTCTTG
1 TTTT-TTTTTTT-TTTTTCTTG
4566743 TTTTTTTTTTCTTTTTT
1 TTTTTTTTTT-TTTTTT
4566760 GAAGAGAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
21 11 0.31
22 18 0.50
23 7 0.19
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.87
Consensus pattern (20 bp):
TTTTTTTTTTTTTTTTCTTG
Found at i:4566731 original size:17 final size:16
Alignment explanation
Indices: 4566705--4566749 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
4566695 CAGATTTTTC
4566705 TTTT-TTTTTTTCTTT
1 TTTTGTTTTTTTCTTT
*
4566720 GTTTTGTTTTTTTGTTT
1 -TTTTGTTTTTTTCTTT
4566737 TTCTTGTTTTTTT
1 TT-TTGTTTTTTT
4566750 TTTCTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 6 0.23
17 20 0.77
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (16 bp):
TTTTGTTTTTTTCTTT
Found at i:4579234 original size:28 final size:27
Alignment explanation
Indices: 4579161--4579235 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 27
4579151 TTGGAGATAA
4579161 TAACGGGGTTGGAGTATTCCCTCGGAAG
1 TAACGGGGTTGGAGTA-TCCCTCGGAAG
*
4579189 TAACGGGGTTGGAGTATCCC-CGATGAAT
1 TAACGGGGTTGGAGTATCCCTCG--GAAG
*
4579217 TAACGAGGTTGGAGTATCC
1 TAACGGGGTTGGAGTATCC
4579236 TTAATTGTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.05
27 4 0.09
28 37 0.86
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.25
Consensus pattern (27 bp):
TAACGGGGTTGGAGTATCCCTCGGAAG
Found at i:4579286 original size:52 final size:50
Alignment explanation
Indices: 4579223--4579390 Score: 183
Period size: 52 Copynumber: 3.3 Consensus size: 50
4579213 GAATTAACGA
** * *
4579223 GGTTGGAGTATCCTTAATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCC-CGATTATGGAAAATTGGTA-TTTTGGAAATAAAATCGG
* * * * *
4579275 TGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTAT-CCCGATT-ATGGAAAATTGGTATTTTGGAAATAAAATCGG
*** *
4579327 GGTTGGAGTATCCCGATTATGGAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCGATTATGGAAAATTGGTATTTTGGAAATAAAATCGG
4579377 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
4579391 CTCGGAAATA
Statistics
Matches: 96, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
50 38 0.40
51 7 0.07
52 39 0.41
53 12 0.12
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (50 bp):
GGTTGGAGTATCCCGATTATGGAAAATTGGTATTTTGGAAATAAAATCGG
Found at i:4579378 original size:50 final size:51
Alignment explanation
Indices: 4579257--4579390 Score: 171
Period size: 50 Copynumber: 2.6 Consensus size: 51
4579247 AAATTGGTAT
* *** *
4579257 TTTTGGAAATAAAATCGGTGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
1 TTTTGGAAATAAAATCGGGGTTGGAGTAT-CCCGATTAAAGGAAAATCAATA
* * *
4579309 TTTTGAAAATAAAACCGGGGTTGGAGTATCCCGATT-ATGGAAAATCAATA
1 TTTTGGAAATAAAATCGGGGTTGGAGTATCCCGATTAAAGGAAAATCAATA
*
4579359 TTTTGGAAATAAAGTCGGGGTTGGAGTATCCC
1 TTTTGGAAATAAAATCGGGGTTGGAGTATCCC
4579391 CTCGGAAATA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
50 38 0.54
51 7 0.10
52 26 0.37
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (51 bp):
TTTTGGAAATAAAATCGGGGTTGGAGTATCCCGATTAAAGGAAAATCAATA
Done.