Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold25
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: 9553305
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 6276 characters in sequence are not A, C, G, or T
File 46 of 56
Found at i:7801310 original size:24 final size:22
Alignment explanation
Indices: 7801270--7801313 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
7801260 TTAAATAATA
*
7801270 TTTAAAAAAAATTTAAAATATG
1 TTTAAAAAAAATATAAAATATG
7801292 TTTAAATATAAAATATAAAATA
1 TTTAAA-A-AAAATATAAAATA
7801314 ATAAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 1 0.05
24 12 0.63
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
TTTAAAAAAAATATAAAATATG
Found at i:7801319 original size:8 final size:7
Alignment explanation
Indices: 7801295--7801324 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
7801285 AAATATGTTT
7801295 AAATATA
1 AAATATA
7801302 AAATATA
1 AAATATA
7801309 AAATAATA
1 AAAT-ATA
7801317 AAATATA
1 AAATATA
7801324 A
1 A
7801325 GGTGTCCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATATA
Found at i:7801319 original size:15 final size:14
Alignment explanation
Indices: 7801295--7801324 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
7801285 AAATATGTTT
7801295 AAATATAAAATATA
1 AAATATAAAATATA
7801309 AAATAATAAAATATA
1 AAAT-ATAAAATATA
7801324 A
1 A
7801325 GGTGTCCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAATATAAAATATA
Found at i:7801798 original size:10 final size:10
Alignment explanation
Indices: 7801785--7801814 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
7801775 TTAAGAAAAT
7801785 TTTTATATAA
1 TTTTATATAA
7801795 TTTTATAATAA
1 TTTTAT-ATAA
7801806 TTTTATATA
1 TTTTATATA
7801815 TACATTGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTTATATAA
Found at i:7801982 original size:33 final size:35
Alignment explanation
Indices: 7801918--7801983 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
7801908 TAAAAAAGAT
**
7801918 TTATATATTTTAATATTTTTATTATTCTATAATGA
1 TTATATATTTTAATATTTAAATTATTCTATAATGA
7801953 TTATATA-TTTATATATTTAAATT-TT-TATAAT
1 TTATATATTTTA-ATATTTAAATTATTCTATAAT
7801984 ATTTAGTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 6 0.21
34 6 0.21
35 16 0.57
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (35 bp):
TTATATATTTTAATATTTAAATTATTCTATAATGA
Found at i:7802219 original size:18 final size:18
Alignment explanation
Indices: 7802198--7802240 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
7802188 AGATACATTT
* *
7802198 AAATGATAATAAAATTAA
1 AAATAATAATAAAAATAA
7802216 AAATAATAATAAAAATAA
1 AAATAATAATAAAAATAA
*
7802234 AATTAAT
1 AAATAAT
7802241 TATTATAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (18 bp):
AAATAATAATAAAAATAA
Found at i:7802809 original size:21 final size:21
Alignment explanation
Indices: 7802752--7802809 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
7802742 ATTATTAATT
* * *
7802752 TTAATCTTATTATTACAATAT
1 TTAATCTCATTATTATAATAA
*
7802773 TTAATCTCATAATTATAATAA
1 TTAATCTCATTATTATAATAA
*
7802794 TTAATCTCATTGTTAT
1 TTAATCTCATTATTAT
7802810 CGTTATTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (21 bp):
TTAATCTCATTATTATAATAA
Found at i:7804403 original size:13 final size:14
Alignment explanation
Indices: 7804375--7804403 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7804365 AAGTGTCCAT
7804375 AAATTTTATTGATA
1 AAATTTTATTGATA
7804389 AAATTTTATTG-TA
1 AAATTTTATTGATA
7804402 AA
1 AA
7804404 GGATTCTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
AAATTTTATTGATA
Found at i:7806446 original size:19 final size:19
Alignment explanation
Indices: 7806422--7806459 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
7806412 TCATAATTGA
7806422 TTTTTTTTC-TTTCTTTCTT
1 TTTTTTTTCGTTT-TTTCTT
7806441 TTTTTTTTCGTTTTTTCTT
1 TTTTTTTTCGTTTTTTCTT
7806460 GATTTTCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (19 bp):
TTTTTTTTCGTTTTTTCTT
Found at i:7806465 original size:19 final size:19
Alignment explanation
Indices: 7806424--7806465 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
7806414 ATAATTGATT
**
7806424 TTTTTTCTTTCTTTCTTTT
1 TTTTTTCTTTCTTTCTTGA
7806443 TTTTTTCGTTT-TTTCTTGA
1 TTTTTTC-TTTCTTTCTTGA
7806462 TTTT
1 TTTT
7806466 CTTATGAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.02, C:0.12, G:0.05, T:0.81
Consensus pattern (19 bp):
TTTTTTCTTTCTTTCTTGA
Found at i:7811763 original size:3 final size:3
Alignment explanation
Indices: 7811755--7811785 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
7811745 GATACCTTGT
7811755 TAA TAA TAA TAA TAA TAA TAA TAA TCAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
7811786 GACTTATTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:7813605 original size:17 final size:18
Alignment explanation
Indices: 7813580--7813614 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7813570 TTTTCATTCT
7813580 TTTTCTTTTTTCCTTTTG
1 TTTTCTTTTTTCCTTTTG
*
7813598 TTTT-TTTTTTCTTTTTG
1 TTTTCTTTTTTCCTTTTG
7813615 CTGTTAAGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (18 bp):
TTTTCTTTTTTCCTTTTG
Found at i:7816139 original size:2 final size:2
Alignment explanation
Indices: 7816132--7816174 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
7816122 TTAACACTAA
7816132 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7816174 A
1 A
7816175 ACACTATTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7821514 original size:92 final size:92
Alignment explanation
Indices: 7821345--7821521 Score: 212
Period size: 92 Copynumber: 1.9 Consensus size: 92
7821335 ATTCTTAATG
* * * *
7821345 AGAATCAAATTTCTTCTAATATGAAAGAAGAAAAGTTGACTGATTATGAATGTCATATTATAAGG
1 AGAATCAAATTCCTTCTAATAGGAAAGAAGAAAAGTTAACTGATTATAAATGTCATATTATAAGG
* *
7821410 ATGAAACTAATGCATAGATTATTTTTT
66 ATGAAACAAATGCAGAGATTATTTTTT
* * * * *
7821437 AGAATCAAATTCCATT-TGATAGGAAAGAAGAAAAGTTAATTGATTGTAAATGTCATTTTGTAAG
1 AGAATCAAATTCC-TTCTAATAGGAAAGAAGAAAAGTTAACTGATTATAAATGTCATATTATAAG
* **
7821501 GCTGGGACAAATGCAGAGATT
65 GATGAAACAAATGCAGAGATT
7821522 TTAAATAAGA
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
92 68 0.97
93 2 0.03
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.33
Consensus pattern (92 bp):
AGAATCAAATTCCTTCTAATAGGAAAGAAGAAAAGTTAACTGATTATAAATGTCATATTATAAGG
ATGAAACAAATGCAGAGATTATTTTTT
Found at i:7822314 original size:13 final size:13
Alignment explanation
Indices: 7822296--7822321 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7822286 ACAGTTGTTG
7822296 ATGAATAATTTCA
1 ATGAATAATTTCA
7822309 ATGAATAATTTCA
1 ATGAATAATTTCA
7822322 TTATTCATCT
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:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
ATGAATAATTTCA
Found at i:7825067 original size:23 final size:23
Alignment explanation
Indices: 7825041--7825086 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7825031 ATTAATTATA
* * *
7825041 AAATTTATAATTAATAATATTTT
1 AAATATATAATTAACAAAATTTT
*
7825064 AAATATATGATTAACAAAATTTT
1 AAATATATAATTAACAAAATTTT
7825087 GGTACTTGGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
AAATATATAATTAACAAAATTTT
Found at i:7826600 original size:18 final size:18
Alignment explanation
Indices: 7826577--7826611 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7826567 ATTGATGAGG
7826577 TTGAATTAGATGGTAAGA
1 TTGAATTAGATGGTAAGA
* *
7826595 TTGAATTGGTTGGTAAG
1 TTGAATTAGATGGTAAG
7826612 GCTCAATCTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.37
Consensus pattern (18 bp):
TTGAATTAGATGGTAAGA
Found at i:7827963 original size:33 final size:33
Alignment explanation
Indices: 7827921--7828030 Score: 148
Period size: 33 Copynumber: 3.3 Consensus size: 33
7827911 AAATATAATA
*
7827921 ACATAACACCCCTACATTATGCTTGACTATGAC
1 ACATAACACCCCTACATTATGCTTGATTATGAC
* *
7827954 ACATAACACCCTTACATTATGCTTGATTATGAT
1 ACATAACACCCCTACATTATGCTTGATTATGAC
* ** *
7827987 ACAAAACACCCCTGTATTATGCTTGATTCTGAC
1 ACATAACACCCCTACATTATGCTTGATTATGAC
*
7828020 ACATAGCACCC
1 ACATAACACCC
7828031 ACGCACTTTG
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 66 1.00
ACGTcount: A:0.33, C:0.28, G:0.10, T:0.29
Consensus pattern (33 bp):
ACATAACACCCCTACATTATGCTTGATTATGAC
Found at i:7828716 original size:23 final size:23
Alignment explanation
Indices: 7828686--7828730 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
7828676 AAACTTGTTC
7828686 CTGTAAGGGTTGGCAATTGATAT
1 CTGTAAGGGTTGGCAATTGATAT
7828709 CTGTAAGGGTTGGCAATTGATA
1 CTGTAAGGGTTGGCAATTGATA
7828731 GGAACACCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.31, T:0.33
Consensus pattern (23 bp):
CTGTAAGGGTTGGCAATTGATAT
Found at i:7829715 original size:22 final size:22
Alignment explanation
Indices: 7829684--7829740 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
7829674 CATCACTATT
7829684 CATCATTGTTCATGTATCGATA
1 CATCATTGTTCATGTATCGATA
*
7829706 CATCACTGTTCATGTATCGATA
1 CATCATTGTTCATGTATCGATA
7829728 CATCATTGTTCAT
1 CATCATTGTTCAT
7829741 CACTATACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (22 bp):
CATCATTGTTCATGTATCGATA
Found at i:7829812 original size:95 final size:95
Alignment explanation
Indices: 7829690--7829862 Score: 292
Period size: 95 Copynumber: 1.8 Consensus size: 95
7829680 TATTCATCAT
* * *
7829690 TGTTCATGTATCGATACATCACTGTTCATGTATCGATACATCATTGTTCATCACTATACATTAAG
1 TGTTCATGTATCGACACATCACTGTTCATATATCGATACATCACTGTTCATCACTATACATTAAG
7829755 CCCAACGGCTATACTTTTATTGTTTATAGC
66 CCCAACGGCTATACTTTTATTGTTTATAGC
* * *
7829785 TGTTCATGTATTGACACATCTCTGTTCATATATCGATATATCACTGTTCATCACTATACATTAAG
1 TGTTCATGTATCGACACATCACTGTTCATATATCGATACATCACTGTTCATCACTATACATTAAG
7829850 CCCAACGGCTATA
66 CCCAACGGCTATA
7829863 ATTTCAAATG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
95 72 1.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (95 bp):
TGTTCATGTATCGACACATCACTGTTCATATATCGATACATCACTGTTCATCACTATACATTAAG
CCCAACGGCTATACTTTTATTGTTTATAGC
Found at i:7833278 original size:22 final size:22
Alignment explanation
Indices: 7833253--7833307 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
7833243 ATCTCATTTT
* * *
7833253 TCACTGTTTATGTATCTATTCA
1 TCACTGTTCATGTATCAATACA
7833275 TCACTGTTCATGTATCAATACA
1 TCACTGTTCATGTATCAATACA
7833297 TCACTGTTCAT
1 TCACTGTTCAT
7833308 CATTATACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.44
Consensus pattern (22 bp):
TCACTGTTCATGTATCAATACA
Found at i:7833307 original size:32 final size:32
Alignment explanation
Indices: 7833271--7833384 Score: 86
Period size: 32 Copynumber: 3.3 Consensus size: 32
7833261 TATGTATCTA
7833271 TTCATCACTGTTCATGTATCAATACATCACTG
1 TTCATCACTGTTCATGTATCAATACATCACTG
* * * *
7833303 TTCATCATTATACAT-TAAGCTCAACAGCTATAATTTCACTG
1 TTCATCACTGTTCATGT-A--TC-A-A--TA-CA--TCACTG
*
7833344 TTCATCACTGTTCATGTATCGATACATCACTG
1 TTCATCACTGTTCATGTATCAATACATCACTG
7833376 TTCATCACT
1 TTCATCACT
7833385 ATACATTTAG
Statistics
Matches: 62, Mismatches: 9, Indels: 22
0.67 0.10 0.24
Matches are distributed among these distances:
31 1 0.02
32 28 0.45
34 3 0.05
35 3 0.05
36 1 0.02
37 1 0.02
38 2 0.03
39 3 0.05
41 19 0.31
42 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.38
Consensus pattern (32 bp):
TTCATCACTGTTCATGTATCAATACATCACTG
Found at i:7833355 original size:73 final size:73
Alignment explanation
Indices: 7833271--7833413 Score: 241
Period size: 73 Copynumber: 2.0 Consensus size: 73
7833261 TATGTATCTA
* *
7833271 TTCATCACTGTTCATGTATCAATACATCACTGTTCATCATTATACATTAAGCTCAACAGCTATAA
1 TTCATCACTGTTCATGTATCAATACATCACTGTTCATCACTATACATTAAGCCCAACAGCTATAA
7833336 TTTCACTG
66 TTTCACTG
* * *
7833344 TTCATCACTGTTCATGTATCGATACATCACTGTTCATCACTATACATTTAGCCCAACGGCTATAA
1 TTCATCACTGTTCATGTATCAATACATCACTGTTCATCACTATACATTAAGCCCAACAGCTATAA
7833409 TTTCA
66 TTTCA
7833414 AATGCATGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 65 1.00
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.36
Consensus pattern (73 bp):
TTCATCACTGTTCATGTATCAATACATCACTGTTCATCACTATACATTAAGCCCAACAGCTATAA
TTTCACTG
Found at i:7839491 original size:13 final size:13
Alignment explanation
Indices: 7839473--7839500 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7839463 ATACAAAGAT
7839473 CAATGTATCGATA
1 CAATGTATCGATA
7839486 CAATGTATCGATA
1 CAATGTATCGATA
7839499 CA
1 CA
7839501 TTGAATAATG
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:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:7839566 original size:13 final size:13
Alignment explanation
Indices: 7839548--7839573 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7839538 AGGGTAGCTT
7839548 TTGTATCGATACA
1 TTGTATCGATACA
7839561 TTGTATCGATACA
1 TTGTATCGATACA
7839574 ACATTTATGT
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):
TTGTATCGATACA
Found at i:7840889 original size:30 final size:29
Alignment explanation
Indices: 7840828--7840889 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
7840818 AATTATATTC
**
7840828 ATGTGTATTTTCAGTTATAGTTATAGTTAT
1 ATGTGTA-TTTCAGTTATAGTTATACATAT
7840858 ATGTGTA-TTCAGTTATAGCTATATACATAT
1 ATGTGTATTTCAGTTATAG-T-TATACATAT
7840888 AT
1 AT
7840890 AATATTAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 11 0.39
29 1 0.04
30 16 0.57
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (29 bp):
ATGTGTATTTCAGTTATAGTTATACATAT
Found at i:7841062 original size:43 final size:44
Alignment explanation
Indices: 7841015--7841101 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
7841005 TTCTCTTAGT
*
7841015 GAAAAGATTAATGCTTTTAGT-AAAGGGTTAGTTCTTTTCGTGA
1 GAAAAGATTAATGCCTTTAGTGAAAGGGTTAGTTCTTTTCGTGA
* ** * * *
7841058 GAAAATATTGGTTCCTTTAGTGAATGGGTTAGTTCTTTTTGTGA
1 GAAAAGATTAATGCCTTTAGTGAAAGGGTTAGTTCTTTTCGTGA
7841102 ATGGGTTGGT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 16 0.44
44 20 0.56
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.43
Consensus pattern (44 bp):
GAAAAGATTAATGCCTTTAGTGAAAGGGTTAGTTCTTTTCGTGA
Found at i:7841101 original size:21 final size:21
Alignment explanation
Indices: 7841068--7841116 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
7841058 GAAAATATTG
*
7841068 GTTCCTTTAGTGAATGGGTTA
1 GTTCTTTTAGTGAATGGGTTA
* *
7841089 GTTCTTTTTGTGAATGGGTTG
1 GTTCTTTTAGTGAATGGGTTA
7841110 GTTCTTT
1 GTTCTTT
7841117 AGTTATTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.12, C:0.08, G:0.29, T:0.51
Consensus pattern (21 bp):
GTTCTTTTAGTGAATGGGTTA
Found at i:7841466 original size:40 final size:40
Alignment explanation
Indices: 7841411--7841488 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
7841401 TGTTTGAGCC
*
7841411 AATTACTAAAATATAGATCCTGTGGCTAATATAAGTTTCT
1 AATTACTAAAATATAGATCATGTGGCTAATATAAGTTTCT
*
7841451 AATTACTAAAATATAGATCATGTGGTTAATATAAGTTT
1 AATTACTAAAATATAGATCATGTGGCTAATATAAGTTT
7841489 ACGGTAACAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (40 bp):
AATTACTAAAATATAGATCATGTGGCTAATATAAGTTTCT
Found at i:7844305 original size:33 final size:33
Alignment explanation
Indices: 7844268--7844335 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
7844258 GATAACCCCA
* * * *
7844268 CATTATGCTTGACTATGATATATACCACCCCTG
1 CATTATGCTTGAATATGACATATAACACCCATG
*
7844301 CATTATGCTTGAATGTGACATATAACACCCATG
1 CATTATGCTTGAATATGACATATAACACCCATG
7844334 CA
1 CA
7844336 CTTTGACATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (33 bp):
CATTATGCTTGAATATGACATATAACACCCATG
Found at i:7846593 original size:2 final size:2
Alignment explanation
Indices: 7846586--7846625 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
7846576 AGTAATTGAT
7846586 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7846626 AAAGCTGTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7847185 original size:23 final size:26
Alignment explanation
Indices: 7847127--7847187 Score: 65
Period size: 29 Copynumber: 2.3 Consensus size: 26
7847117 TGCATCATTT
*
7847127 TTAAAATAAAAATAAATCAAAACTAATC
1 TTAAAATAAAAATAAATC--AACTAACC
7847155 TTACAAATAAAAATAAATC-A-T-ACC
1 TTA-AAATAAAAATAAATCAACTAACC
7847179 TTAAAATAA
1 TTAAAATAA
7847188 TTAAACTCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
23 6 0.19
24 5 0.16
25 1 0.03
26 1 0.03
28 3 0.10
29 15 0.48
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.26
Consensus pattern (26 bp):
TTAAAATAAAAATAAATCAACTAACC
Found at i:7847964 original size:19 final size:19
Alignment explanation
Indices: 7847942--7847980 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
7847932 ATTTAATTCA
*
7847942 AAAATCTATATTTTATATT
1 AAAATCAATATTTTATATT
* *
7847961 AAAATGAATTTTTTATATT
1 AAAATCAATATTTTATATT
7847980 A
1 A
7847981 TTTAATTACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (19 bp):
AAAATCAATATTTTATATT
Found at i:7852236 original size:22 final size:22
Alignment explanation
Indices: 7852211--7852287 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
7852201 GTATATGACC
7852211 ATAACTAAATGAACATAACACT
1 ATAACTAAATGAACATAACACT
* **
7852233 ATAACTGAATCTACATATA-ACT
1 ATAACTAAATGAACATA-ACACT
* *
7852255 ATAACTAAATGAACATATCATT
1 ATAACTAAATGAACATAACACT
*
7852277 ATAACTGAATG
1 ATAACTAAATG
7852288 TATATATAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
22 43 0.98
23 1 0.02
ACGTcount: A:0.49, C:0.16, G:0.06, T:0.29
Consensus pattern (22 bp):
ATAACTAAATGAACATAACACT
Found at i:7852294 original size:22 final size:22
Alignment explanation
Indices: 7852232--7852360 Score: 116
Period size: 22 Copynumber: 5.9 Consensus size: 22
7852222 AACATAACAC
* *
7852232 TATAACTGAATCTACATATAAC
1 TATAACTGAATGTACATATAAT
* * *
7852254 TATAACTAAATGAACATATCAT
1 TATAACTGAATGTACATATAAT
*
7852276 TATAACTGAATGTATATATAAT
1 TATAACTGAATGTACATATAAT
* * *
7852298 TATAATTGAAAGTGCATATCAA-
1 TATAACTGAATGTACATAT-AAT
* * *
7852320 TATAACTTATTGTACATATGAT
1 TATAACTGAATGTACATATAAT
* *
7852342 TATAACTGGATCTACATAT
1 TATAACTGAATGTACATAT
7852361 CAATCAGATA
Statistics
Matches: 82, Mismatches: 23, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
21 1 0.01
22 79 0.96
23 2 0.02
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (22 bp):
TATAACTGAATGTACATATAAT
Found at i:7852316 original size:44 final size:43
Alignment explanation
Indices: 7852211--7852348 Score: 143
Period size: 44 Copynumber: 3.1 Consensus size: 43
7852201 GTATATGACC
* * * *
7852211 ATAACTAAATGAACATAACACTATAACTGAATCTACATATAACT
1 ATAACTAAATG-ACATATCAATATAACTGAATGTACATATAATT
* *
7852255 ATAACTAAATGAACATATCATTATAACTGAATGTATATATAATT
1 ATAACTAAATG-ACATATCAATATAACTGAATGTACATATAATT
* * * *
7852299 ATAATTGAAAGTG-CATATCAATATAACTTATTGTACATATGATT
1 ATAACT-AAA-TGACATATCAATATAACTGAATGTACATATAATT
7852343 ATAACT
1 ATAACT
7852349 GGATCTACAT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
44 75 0.94
45 3 0.04
46 2 0.03
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (43 bp):
ATAACTAAATGACATATCAATATAACTGAATGTACATATAATT
Found at i:7852491 original size:21 final size:22
Alignment explanation
Indices: 7852467--7852519 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
7852457 AGTATAAAGT
7852467 ATGTACATATGACAAA-AT-GA
1 ATGTACATATGACAAACATGGA
* *
7852487 GATGTACATATTATAAACATGGA
1 -ATGTACATATGACAAACATGGA
7852510 ATGTACATAT
1 ATGTACATAT
7852520 AAATATAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 14 0.50
22 12 0.43
23 2 0.07
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.30
Consensus pattern (22 bp):
ATGTACATATGACAAACATGGA
Found at i:7852969 original size:21 final size:21
Alignment explanation
Indices: 7852896--7853008 Score: 70
Period size: 21 Copynumber: 5.5 Consensus size: 21
7852886 AAATTAATCT
*
7852896 CTTTCACTAAAAGAATCAA-C
1 CTTTCACTAAGAGAATCAACC
* * * * *
7852916 ATTTCCATTAAAAGAACCAACT
1 CTTT-CACTAAGAGAATCAACC
* * *
7852938 CATTCTCTAAGAGAATTAACC
1 CTTTCACTAAGAGAATCAACC
* * *
7852959 CTTTCATTAAG-GGACCAACC
1 CTTTCACTAAGAGAATCAACC
*
7852979 CTTTCACTAAGAGAAT-AAAC
1 CTTTCACTAAGAGAATCAACC
*
7852999 ATTTCACTAA
1 CTTTCACTAA
7853009 AAAAAACCAA
Statistics
Matches: 67, Mismatches: 23, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
20 31 0.46
21 34 0.51
22 2 0.03
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (21 bp):
CTTTCACTAAGAGAATCAACC
Found at i:7853059 original size:22 final size:22
Alignment explanation
Indices: 7853031--7853073 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
7853021 CTTTCAAAAA
7853031 ATCACTACAATAATATGTACAC
1 ATCACTACAATAATATGTACAC
* *
7853053 ATCACTATAATATTATGTACA
1 ATCACTACAATAATATGTACA
7853074 TATGTATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.33
Consensus pattern (22 bp):
ATCACTACAATAATATGTACAC
Found at i:7853361 original size:22 final size:22
Alignment explanation
Indices: 7853336--7853417 Score: 93
Period size: 22 Copynumber: 4.0 Consensus size: 22
7853326 TAGAACTATG
*
7853336 TACATATCACTGTAATTAAATA
1 TACATATCACTATAATTAAATA
* *
7853358 TACATATGATTATAATTAAATA
1 TACATATCACTATAATTAAATA
7853380 TACATATCAC--T-A-T-AATA
1 TACATATCACTATAATTAAATA
*
7853397 TACATATCACTATAACTAAAT
1 TACATATCACTATAATTAAAT
7853418 GTTTATTCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
17 14 0.28
18 1 0.02
19 2 0.04
20 2 0.04
21 1 0.02
22 30 0.60
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (22 bp):
TACATATCACTATAATTAAATA
Found at i:7853398 original size:17 final size:17
Alignment explanation
Indices: 7853376--7853411 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
7853366 ATTATAATTA
7853376 AATATACATATCACTAT
1 AATATACATATCACTAT
7853393 AATATACATATCACTAT
1 AATATACATATCACTAT
7853410 AA
1 AA
7853412 CTAAATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (17 bp):
AATATACATATCACTAT
Found at i:7861796 original size:20 final size:20
Alignment explanation
Indices: 7861757--7861796 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7861747 GTTATTTTAC
*
7861757 ATATTATAATTGTGTTTAAA
1 ATATTATAATTGTGTATAAA
7861777 ATATTATATATTG-GTATAAA
1 ATATTATA-ATTGTGTATAAA
7861797 TTGTTATGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (20 bp):
ATATTATAATTGTGTATAAA
Found at i:7861857 original size:2 final size:2
Alignment explanation
Indices: 7861850--7861880 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7861840 TTCGAGTATT
7861850 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7861881 TCTGTTGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7863437 original size:2 final size:2
Alignment explanation
Indices: 7863425--7863466 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
7863415 ATTCAGTTAC
*
7863425 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7863467 GTATGCAGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7867847 original size:2 final size:2
Alignment explanation
Indices: 7867840--7867870 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7867830 CCCACAACAA
7867840 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7867871 AGATTTCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7868364 original size:31 final size:31
Alignment explanation
Indices: 7868329--7868388 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
7868319 TCTTTTTGGG
*
7868329 ATTTAAATTATTTT-ATTTTTGATTATTTTTA
1 ATTTAAATTATTTTAATTTTAG-TTATTTTTA
*
7868360 ATTTAAATTCTTTTAATTTTAGTTATTTT
1 ATTTAAATTATTTTAATTTTAGTTATTTT
7868389 GGGTTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 20 0.77
32 6 0.23
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.67
Consensus pattern (31 bp):
ATTTAAATTATTTTAATTTTAGTTATTTTTA
Found at i:7868734 original size:52 final size:53
Alignment explanation
Indices: 7868650--7868752 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 53
7868640 TCTAAAATCA
* * *
7868650 ATTAATTGAATTTTGTTTTGAGTAAAAATTTTATTTTTTATAAAATTAAGATT
1 ATTAATTGAATTTTGTATTGAGTAAAAATTTTATTTTTGACAAAATTAAGATT
*
7868703 ATTAATTGAATTTTG-ATTGAGTAAAATTTTTATTTTTGACAAAATTAAGA
1 ATTAATTGAATTTTGTATTGAGTAAAAATTTTATTTTTGACAAAATTAAGA
7868753 GTATATGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 31 0.67
53 15 0.33
ACGTcount: A:0.39, C:0.01, G:0.11, T:0.50
Consensus pattern (53 bp):
ATTAATTGAATTTTGTATTGAGTAAAAATTTTATTTTTGACAAAATTAAGATT
Found at i:7869453 original size:17 final size:17
Alignment explanation
Indices: 7869428--7869462 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7869418 TAAACTTATT
* *
7869428 TAATTTAAATTTAAAAA
1 TAATCTAAACTTAAAAA
7869445 TAATCTAAACTTAAAAA
1 TAATCTAAACTTAAAAA
7869462 T
1 T
7869463 TAACTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (17 bp):
TAATCTAAACTTAAAAA
Found at i:7871090 original size:2 final size:2
Alignment explanation
Indices: 7871085--7871115 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7871075 ACATACACAC
7871085 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7871116 GCCATCCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7871761 original size:20 final size:19
Alignment explanation
Indices: 7871720--7871801 Score: 56
Period size: 17 Copynumber: 4.7 Consensus size: 19
7871710 ATAATAAGTA
7871720 TTATATAATATA--AAAA-
1 TTATATAATATATTAAAAT
*
7871736 TAATATAAATATATTAAAAT
1 TTATAT-AATATATTAAAAT
7871756 TTATAT--TATA--AAAA-
1 TTATATAATATATTAAAAT
*
7871770 ATA-ATAATATATTAAAAT
1 TTATATAATATATTAAAAT
*
7871788 TTTTATAAATATAT
1 TTATAT-AATATAT
7871802 AATATTTTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 18
0.68 0.07 0.25
Matches are distributed among these distances:
13 2 0.04
14 2 0.04
15 8 0.16
16 5 0.10
17 14 0.28
18 1 0.02
19 6 0.12
20 12 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TTATATAATATATTAAAAT
Found at i:7871765 original size:17 final size:17
Alignment explanation
Indices: 7871743--7871789 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 17
7871733 AAATAATATA
7871743 AATATATTAAAATTTAT
1 AATATATTAAAATTTAT
* * *
7871760 -AT-TATAAAAAATAAT
1 AATATATTAAAATTTAT
7871775 AATATATTAAAATTT
1 AATATATTAAAATTT
7871790 TTATAAATAT
Statistics
Matches: 22, Mismatches: 6, Indels: 4
0.69 0.19 0.12
Matches are distributed among these distances:
15 10 0.45
16 4 0.18
17 8 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AATATATTAAAATTTAT
Found at i:7871793 original size:34 final size:36
Alignment explanation
Indices: 7871694--7871800 Score: 107
Period size: 36 Copynumber: 3.0 Consensus size: 36
7871684 CGCATATTAA
* * *
7871694 AAAATATAATTTAAATATAAT-AAGTATTATATAATAT
1 AAAA-ATAATATAAATATATTAAAAT-TTATATAATAT
*
7871731 AAAAATAATATAAATATATTAAAATTTATATTATA-
1 AAAAATAATATAAATATATTAAAATTTATATAATAT
*
7871766 AAAAAT-A-AT-AATATATTAAAATTTTTATAAATAT
1 AAAAATAATATAAATATATTAAAATTTATAT-AATAT
7871800 A
1 A
7871801 TAATATTTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
32 18 0.30
33 5 0.08
34 2 0.03
35 6 0.10
36 23 0.38
37 7 0.11
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (36 bp):
AAAAATAATATAAATATATTAAAATTTATATAATAT
Found at i:7872499 original size:20 final size:23
Alignment explanation
Indices: 7872452--7872497 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
7872442 ATATTTTATT
7872452 TAAAT-TTAATAATAAAAATATA
1 TAAATATTAATAATAAAAATATA
7872474 TAAATATTAAT-ATAAAAATA-A
1 TAAATATTAATAATAAAAATATA
7872495 TAA
1 TAA
7872498 TAAAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.17
22 14 0.61
23 5 0.22
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
TAAATATTAATAATAAAAATATA
Found at i:7873277 original size:2 final size:2
Alignment explanation
Indices: 7873270--7873310 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
7873260 CCTTTCTTAC
7873270 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7873311 GAAATCAAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7873528 original size:20 final size:19
Alignment explanation
Indices: 7873496--7873541 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
7873486 TTTAATTATC
7873496 AAAATATATAATTATTAATA
1 AAAATATATAATT-TTAATA
*
7873516 TAAAATA-ATAATTTTTATA
1 -AAAATATATAATTTTAATA
7873535 AAAATAT
1 AAAATAT
7873542 GAATTTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 6 0.26
19 5 0.22
20 6 0.26
21 6 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATATATAATTTTAATA
Found at i:7873534 original size:17 final size:19
Alignment explanation
Indices: 7873491--7873546 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 19
7873481 TTAAATTTAA
7873491 TTATCAAAATATATAATTAT
1 TTAT-AAAATATATAATTAT
7873511 TAATATAAAATA-ATAATT-T
1 T--TATAAAATATATAATTAT
7873530 TTATAAAA-ATATGAATT
1 TTATAAAATATAT-AATT
7873547 TTTGACCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
16 1 0.03
17 9 0.28
18 4 0.12
19 2 0.06
20 7 0.22
21 6 0.19
22 3 0.09
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
TTATAAAATATATAATTAT
Found at i:7875534 original size:26 final size:27
Alignment explanation
Indices: 7875505--7875557 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
7875495 TAATCTTTGA
7875505 TTGAAA-AACGAGGTTAGAGTATCCCC
1 TTGAAATAACGAGGTTAGAGTATCCCC
* * *
7875531 TTGAAATAATGGGGTTAGAGTGTCCCC
1 TTGAAATAACGAGGTTAGAGTATCCCC
7875558 GACAATGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (27 bp):
TTGAAATAACGAGGTTAGAGTATCCCC
Found at i:7877428 original size:187 final size:187
Alignment explanation
Indices: 7877113--7877490 Score: 670
Period size: 187 Copynumber: 2.0 Consensus size: 187
7877103 GAAATGAAAC
*
7877113 ATGGCATTTTAATTACACAAATGGTATGAAAATATTAAAACAATCCTAAAACTACCACATCCAAG
1 ATGGCATTTTAATCACACAAATGGTATGAAAATATTAAAACAATCCTAAAACTACCACATCCAAG
7877178 GCCACAATAATGCATGATGATCTAAGAGGGTCATGGAAACATTTAGGATCACTAAAATGATGATG
66 GCCACAATAATGCATGATGATCTAAGAGGGTCATGGAAACATTTAGGATCACTAAAATGATGATG
* *
7877243 AACACATAAACAGAAAATACAAGGATAAAGTCCAGAAATATATAC-ACACAAGCAACT
131 AACACATAAACAAAAAATACAAGGATAAAGTCCA-AAAAATATACAACACAAGCAACT
7877300 ATGGCATTTTAATCACACAAATGGTATGAAAATATTAAAACAATCCTAAAACTACCACATCCAAG
1 ATGGCATTTTAATCACACAAATGGTATGAAAATATTAAAACAATCCTAAAACTACCACATCCAAG
7877365 GCCACAATAATGCATGATGATCCTAAGAGGGTCAT-GAAACATTTAGGATCACTAAAATGATGAT
66 GCCACAATAATGCATGATGAT-CTAAGAGGGTCATGGAAACATTTAGGATCACTAAAATGATGAT
* *
7877429 GAACATATAAACAAAAAATACAAGGATAAAGTCTAAAAAATATACTAACACAAGCAACT
130 GAACACATAAACAAAAAATACAAGGATAAAGTCCAAAAAATATAC-AACACAAGCAACT
7877488 ATG
1 ATG
7877491 TTGATTTGCT
Statistics
Matches: 183, Mismatches: 5, Indels: 5
0.95 0.03 0.03
Matches are distributed among these distances:
186 9 0.05
187 146 0.80
188 28 0.15
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (187 bp):
ATGGCATTTTAATCACACAAATGGTATGAAAATATTAAAACAATCCTAAAACTACCACATCCAAG
GCCACAATAATGCATGATGATCTAAGAGGGTCATGGAAACATTTAGGATCACTAAAATGATGATG
AACACATAAACAAAAAATACAAGGATAAAGTCCAAAAAATATACAACACAAGCAACT
Found at i:7878514 original size:21 final size:20
Alignment explanation
Indices: 7878486--7878524 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
7878476 TACTGCCAAG
7878486 GAAATGTATCGATACATTAA
1 GAAATGTATCGATACATTAA
7878506 GAAAGTGTATCGATACATT
1 GAAA-TGTATCGATACATT
7878525 GTATCGATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (20 bp):
GAAATGTATCGATACATTAA
Found at i:7878529 original size:13 final size:13
Alignment explanation
Indices: 7878511--7878549 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
7878501 ATTAAGAAAG
7878511 TGTATCGATACAT
1 TGTATCGATACAT
7878524 TGTATCGATACAT
1 TGTATCGATACAT
7878537 TGTATCGATACAT
1 TGTATCGATACAT
7878550 CGATCTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:7880971 original size:52 final size:51
Alignment explanation
Indices: 7880904--7881299 Score: 271
Period size: 52 Copynumber: 7.6 Consensus size: 51
7880894 TTAAGTTTCT
7880904 CAATTGTT-CATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
1 CAATT-TTCCATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
* * * * *
7880955 AAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACAC
* * * ** * ***** * *
7881008 CAATTTTTCACAATCGAGGATACTCCAACCTTGTTATTTCATCGGGGATACTC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGGT-TTT-ATTTTCAAAACAC
* * * * * *
7881061 CAAACCCGTTACC-TCCAA--GGGGATACTCCAACCCCGGCTTTATTTCCAAAATAT
1 C-AA---TTTTCCAT--AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
** * *
7881115 TGATTTTTCATAATCGGGGATACTCCAACCCGGGTTTTA-TTTCTAAAACAC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACAC
* * * * *
7881166 TAATTTTTCACAATCGGGGATACTCCAACCTCGGTTTTATTTTCAAAATAC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
* * *
7881217 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACAC
* * **
7881270 CAATTTTTCACAATCAAGGATACTCCAACC
1 CAATTTTCCATAATCGGGGATACTCCAACC
7881300 TCGTTATTTC
Statistics
Matches: 259, Mismatches: 68, Indels: 35
0.72 0.19 0.10
Matches are distributed among these distances:
49 2 0.01
50 8 0.03
51 81 0.31
52 100 0.39
53 37 0.14
54 8 0.03
55 3 0.01
56 15 0.06
57 3 0.01
58 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
CAATTTTCCATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACAC
Found at i:7881142 original size:51 final size:51
Alignment explanation
Indices: 7881079--7881299 Score: 244
Period size: 51 Copynumber: 4.3 Consensus size: 51
7881069 TTACCTCCAA
* * *
7881079 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAATACTAATTTTTCATAATC
* * * *
7881130 GGGGATACTCCAACCCGGGTTTTATTTCTAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAATACTAATTTTTCATAATC
* * * * *
7881181 GGGGATACTCCAACCTCGGTTTTATTTTCAAAATACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCCAAAATACTAATTTTTC-ATAATC
* * * * * *
7881233 GGGGATACTCCAACTCCGATTTTATTTTCAAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTA-TTTCCAAAATACTAATTTTTCATAATC
**
7881285 AAGGATACTCCAACC
1 GGGGATACTCCAACC
7881300 TCGTTATTTC
Statistics
Matches: 140, Mismatches: 28, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
51 82 0.59
52 41 0.29
53 17 0.12
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTCCAAAATACTAATTTTTCATAATC
Found at i:7883270 original size:61 final size:61
Alignment explanation
Indices: 7883205--7883383 Score: 182
Period size: 61 Copynumber: 3.1 Consensus size: 61
7883195 AGGATGCAAG
7883205 GAATGATAAAGGTGCCAATATGTTGATTCATGGCCAGCGATATCGGGCTTGAAGAT--G-A
1 GAATGATAAAGGTGCCAATATGTTGATTCATGGCCAGCGATATCGGGCTTGAAGATGAGAA
* * * ** * *
7883263 GAA-G---AA--TGCCAATGTGCTGATTCATGGTCAGCGACGTTGGACTT-AAGGATGCA-AA
1 GAATGATAAAGGTGCCAATATGTTGATTCATGGCCAGCGATATCGGGCTTGAA-GATG-AGAA
**
7883318 GAATGATAAAGGTGCCAATATGTTGATTCACAGCCAGCGATATCGGGCTTGAAGATGAGAA
1 GAATGATAAAGGTGCCAATATGTTGATTCATGGCCAGCGATATCGGGCTTGAAGATGAGAA
7883379 GAATG
1 GAATG
7883384 CCAATGTGCT
Statistics
Matches: 92, Mismatches: 16, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
51 2 0.02
52 34 0.37
54 2 0.02
55 4 0.04
56 1 0.01
57 1 0.01
58 3 0.03
59 2 0.02
60 1 0.01
61 40 0.43
62 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (61 bp):
GAATGATAAAGGTGCCAATATGTTGATTCATGGCCAGCGATATCGGGCTTGAAGATGAGAA
Found at i:7883295 original size:52 final size:52
Alignment explanation
Indices: 7883217--7883409 Score: 181
Period size: 52 Copynumber: 3.5 Consensus size: 52
7883207 ATGATAAAGG
*
7883217 TGCCAATATGTTGATTCATGGCCAGCGATATCGGGCTTGAAGATGAGAAGAA
1 TGCCAATATGCTGATTCATGGCCAGCGATATCGGGCTTGAAGATGAGAAGAA
* * ** * *
7883269 TGCCAATGTGCTGATTCATGGTCAGCGACGTTGGACTT-AAGGATGCAAAGAATGATAAA
1 TGCCAATATGCTGATTCATGGCCAGCGATATCGGGCTTGAA-GATG---AGAA-G---AA
* **
7883328 GGTGCCAATATGTTGATTCACAGCCAGCGATATCGGGCTTGAAGATGAGAAGAA
1 --TGCCAATATGCTGATTCATGGCCAGCGATATCGGGCTTGAAGATGAGAAGAA
* *
7883382 TGCCAATGTGCTGATTCATGGTCAGCGA
1 TGCCAATATGCTGATTCATGGCCAGCGA
7883410 CTTTAAGCGT
Statistics
Matches: 109, Mismatches: 21, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
51 2 0.02
52 58 0.53
54 2 0.02
55 4 0.04
56 1 0.01
57 1 0.01
58 4 0.04
59 2 0.02
61 33 0.30
62 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (52 bp):
TGCCAATATGCTGATTCATGGCCAGCGATATCGGGCTTGAAGATGAGAAGAA
Found at i:7883354 original size:113 final size:113
Alignment explanation
Indices: 7883146--7883410 Score: 478
Period size: 113 Copynumber: 2.4 Consensus size: 113
7883136 AGATGATAAG
* * *
7883146 GATGAGAA-AATGCCAATGTGCTGATTCAAGGTCAGCGGCGTTGGACTTAAGGATGCAAGGAATG
1 GATGAGAAGAATGCCAATGTGCTGATTCATGGTCAGCGACGTTGGACTTAAGGATGCAAAGAATG
**
7883210 ATAAAGGTGCCAATATGTTGATTCATGGCCAGCGATATCGGGCTTGAA
66 ATAAAGGTGCCAATATGTTGATTCACAGCCAGCGATATCGGGCTTGAA
7883258 GATGAGAAGAATGCCAATGTGCTGATTCATGGTCAGCGACGTTGGACTTAAGGATGCAAAGAATG
1 GATGAGAAGAATGCCAATGTGCTGATTCATGGTCAGCGACGTTGGACTTAAGGATGCAAAGAATG
7883323 ATAAAGGTGCCAATATGTTGATTCACAGCCAGCGATATCGGGCTTGAA
66 ATAAAGGTGCCAATATGTTGATTCACAGCCAGCGATATCGGGCTTGAA
7883371 GATGAGAAGAATGCCAATGTGCTGATTCATGGTCAGCGAC
1 GATGAGAAGAATGCCAATGTGCTGATTCATGGTCAGCGAC
7883411 TTTAAGCGTA
Statistics
Matches: 147, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
112 8 0.05
113 139 0.95
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (113 bp):
GATGAGAAGAATGCCAATGTGCTGATTCATGGTCAGCGACGTTGGACTTAAGGATGCAAAGAATG
ATAAAGGTGCCAATATGTTGATTCACAGCCAGCGATATCGGGCTTGAA
Found at i:7883695 original size:52 final size:52
Alignment explanation
Indices: 7883550--7883740 Score: 147
Period size: 52 Copynumber: 3.7 Consensus size: 52
7883540 ATAAATATGC
* * ** * * * *
7883550 CAATATGCTGATTCAAGGCCAGCAATATCGGACCT-AAAAATGACA-AAAGTGC
1 CAATATGCTGATTCAAGGCCAACAACATTAGACTTGAGAGATGA-AGAAAGT-A
* * * ** *
7883602 CAATATGCTGATTCAAGGCCAACAATATTGGA-TTTAGAGATGGTGAAGGTAA
1 CAATATGCTGATTCAAGGCCAACAACATTAGACTTGAGAGATGAAGAAAGT-A
*
7883654 CAATGTGCTGATTCAAGGCCAACAACATTAGACTTGA-AGATGAAGAAAGTA
1 CAATATGCTGATTCAAGGCCAACAACATTAGACTTGAGAGATGAAGAAAGTA
* * **
7883705 CTAATATGTTGATTCATGGCCAATGACATTAGACTT
1 C-AATATGCTGATTCAAGGCCAACAACATTAGACTT
7883741 TGAAAAGAAG
Statistics
Matches: 113, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
51 3 0.03
52 107 0.95
53 3 0.03
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (52 bp):
CAATATGCTGATTCAAGGCCAACAACATTAGACTTGAGAGATGAAGAAAGTA
Found at i:7883852 original size:58 final size:58
Alignment explanation
Indices: 7883705--7883863 Score: 169
Period size: 58 Copynumber: 2.8 Consensus size: 58
7883695 GAAGAAAGTA
* * * * *
7883705 CTAATATGTTGATTCATGGCCAATGACATTAGACTTTGAAAAGAAGCTTTGACGAGTG
1 CTAATATGTTGATTCAAGGCCAATGACATTGGGCTTTGAAAAGAAGCTTTGACAAATG
* * * * *
7883763 CCAATGTGTTGATTCAAGGCCAATGATATTGGGC-TTGAGAATGAAGGTTTGACAAATG
1 CTAATATGTTGATTCAAGGCCAATGACATTGGGCTTTGA-AAAGAAGCTTTGACAAATG
* ** *
7883821 CTAATATGTTGATTCAAGGACAACAACATTGGG-TTTGGAAAGA
1 CTAATATGTTGATTCAAGGCCAATGACATTGGGCTTTGAAAAGA
7883864 GATGCCACCA
Statistics
Matches: 81, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
57 8 0.10
58 73 0.90
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (58 bp):
CTAATATGTTGATTCAAGGCCAATGACATTGGGCTTTGAAAAGAAGCTTTGACAAATG
Found at i:7884016 original size:65 final size:64
Alignment explanation
Indices: 7883877--7884107 Score: 218
Period size: 65 Copynumber: 3.6 Consensus size: 64
7883867 GCCACCAACA
* * * * * *
7883877 TGTGTGGGCTTTTGAGAAGGTTGCTATCAACTTATGTGGGCTTTGAGGAAGATTGCCA-CTAGCT
1 TGTGTGGGCTTTGGAAAAGGTTGCCACCAACTTATGTGGGCTTTGAGGAAGGTTGCCATC-GGCT
* * * * *
7883941 TGTATAGGCTTTGGAAAAAGGTTGCCACCAACTTATGTGAGCTTTGAGGAAGGTTTCCATCGGTT
1 TGTGTGGGCTTTGG-AAAAGGTTGCCACCAACTTATGTGGGCTTTGAGGAAGGTTGCCATCGGCT
** ** *
7884006 TGTGTGGGCTTTGGGGAAGGTTGCCA-C-GTTTATGTGGGCTTTGA-GAAGGGTTGCCATCGACT
1 TGTGTGGGCTTTGGAAAAGGTTGCCACCAACTTATGTGGGCTTTGAGGAA-GGTTGCCATCGGCT
* * * *
7884068 TGTGTGGGCTTTTGAGAAATGATGCCACCAACTTGTGTGG
1 TGTGTGGGCTTTGGA-AAAGGTTGCCACCAACTTATGTGG
7884108 TTAAAAGGAT
Statistics
Matches: 132, Mismatches: 29, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
61 3 0.02
62 38 0.29
63 9 0.07
64 22 0.17
65 59 0.45
66 1 0.01
ACGTcount: A:0.20, C:0.15, G:0.32, T:0.33
Consensus pattern (64 bp):
TGTGTGGGCTTTGGAAAAGGTTGCCACCAACTTATGTGGGCTTTGAGGAAGGTTGCCATCGGCT
Found at i:7884094 original size:33 final size:32
Alignment explanation
Indices: 7883850--7884107 Score: 141
Period size: 32 Copynumber: 8.1 Consensus size: 32
7883840 ACAACAACAT
*
7883850 TGGG-TTTG-GAAAGAGATGCCACCAACATGTG
1 TGGGCTTTGAGAAAG-GATGCCACCAACTTGTG
* * * *
7883881 TGGGCTTTTGAG-AAGGTTGCTATCAACTTATG
1 TGGGC-TTTGAGAAAGGATGCCACCAACTTGTG
* * * *
7883913 TGGGCTTTGAGGAA-GATTGCCACTAGCTTGTA
1 TGGGCTTTGAGAAAGGA-TGCCACCAACTTGTG
* * * *
7883945 TAGGCTTTGGAAAAAGGTTGCCACCAACTTATG
1 TGGGCTTT-GAGAAAGGATGCCACCAACTTGTG
* * * * * ***
7883978 TGAGCTTTGAGGAAGGTTTCCATCGGTTTGTG
1 TGGGCTTTGAGAAAGGATGCCACCAACTTGTG
* * * ** *
7884010 TGGGCTTTGGGGAAGGTTGCCA-C-GTTTATG
1 TGGGCTTTGAGAAAGGATGCCACCAACTTGTG
* * * *
7884040 TGGGCTTTGAGAAGGGTTGCCATCGACTTGTG
1 TGGGCTTTGAGAAAGGATGCCACCAACTTGTG
*
7884072 TGGGCTTTTGAGAAATGATGCCACCAACTTGTG
1 TGGGC-TTTGAGAAAGGATGCCACCAACTTGTG
7884105 TGG
1 TGG
7884108 TTAAAAGGAT
Statistics
Matches: 172, Mismatches: 45, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
30 25 0.15
31 13 0.08
32 79 0.46
33 53 0.31
34 2 0.01
ACGTcount: A:0.21, C:0.15, G:0.32, T:0.31
Consensus pattern (32 bp):
TGGGCTTTGAGAAAGGATGCCACCAACTTGTG
Found at i:7885473 original size:43 final size:43
Alignment explanation
Indices: 7885369--7885515 Score: 249
Period size: 43 Copynumber: 3.4 Consensus size: 43
7885359 TTCTCAAGTC
*
7885369 GCCCTTACGGGTTTTCAACTCAAGTTGGCTTAATTATCCAGACT
1 GCCCTTACAGGTTTTCAACTCAAGTTGGCTTAATTATCCAGA-T
* *
7885413 GCCCTTACAGGTTTTCAACTCAGGTTGGCTTAATTATCTAGAT
1 GCCCTTACAGGTTTTCAACTCAAGTTGGCTTAATTATCCAGAT
7885456 GCCCTTACAGGTTTTCAACTCAAGTTGGCTTAATTATCCAGAT
1 GCCCTTACAGGTTTTCAACTCAAGTTGGCTTAATTATCCAGAT
*
7885499 GCCCTTACGGGTTTTCA
1 GCCCTTACAGGTTTTCA
7885516 TTCGGACCCT
Statistics
Matches: 97, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
43 58 0.60
44 39 0.40
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (43 bp):
GCCCTTACAGGTTTTCAACTCAAGTTGGCTTAATTATCCAGAT
Found at i:7888178 original size:20 final size:20
Alignment explanation
Indices: 7888153--7888195 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
7888143 CATAGACCTC
7888153 AATTTCTTTGTGAATCATGT
1 AATTTCTTTGTGAATCATGT
*
7888173 AATTTCTTTGTGCATCATGT
1 AATTTCTTTGTGAATCATGT
7888193 AAT
1 AAT
7888196 GGAACAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.49
Consensus pattern (20 bp):
AATTTCTTTGTGAATCATGT
Found at i:7888655 original size:13 final size:13
Alignment explanation
Indices: 7888637--7888662 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7888627 TACATAAGTT
7888637 TGTATCGATACAA
1 TGTATCGATACAA
7888650 TGTATCGATACAA
1 TGTATCGATACAA
7888663 AACTACCCTG
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:7892067 original size:13 final size:13
Alignment explanation
Indices: 7892026--7892078 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
7892016 CTATTAGAAG
7892026 CAATGTATCGATA
1 CAATGTATCGATA
7892039 CAA--T-TC-AT-
1 CAATGTATCGATA
7892047 C-ATGTATCGATA
1 CAATGTATCGATA
*
7892059 CATTGTATCGATA
1 CAATGTATCGATA
7892072 CAATGTA
1 CAATGTA
7892079 CCATGTATCG
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 19 0.59
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:7892071 original size:33 final size:33
Alignment explanation
Indices: 7892029--7892093 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
7892019 TTAGAAGCAA
*
7892029 TGTATCGATACAAT-TCATCATGTATCGATACAT
1 TGTATCGATACAATGT-ACCATGTATCGATACAT
7892062 TGTATCGATACAATGTACCATGTATCGATACA
1 TGTATCGATACAATGTACCATGTATCGATACA
7892094 AACAGTGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAT
Found at i:7892147 original size:19 final size:19
Alignment explanation
Indices: 7892123--7892222 Score: 116
Period size: 19 Copynumber: 5.9 Consensus size: 19
7892113 CTGCCAGTTT
7892123 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
7892142 CATGTATCGATAC-----A
1 CATGTATCGATACAATGAA
7892156 -ATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
7892174 CATGTATCGATAC-----A
1 CATGTATCGATACAATGAA
7892188 -ATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
7892206 CATGTATCGATACAATG
1 CATGTATCGATACAATG
7892223 TATCGATACA
Statistics
Matches: 69, Mismatches: 0, Indels: 24
0.74 0.00 0.26
Matches are distributed among these distances:
13 24 0.35
14 2 0.03
18 2 0.03
19 41 0.59
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:7892161 original size:13 final size:12
Alignment explanation
Indices: 7892123--7892233 Score: 90
Period size: 13 Copynumber: 10.2 Consensus size: 12
7892113 CTGCCAGTTT
7892123 CATGTATCGATA
1 CATGTATCGATA
7892135 CA---AT-GA-A
1 CATGTATCGATA
7892142 CATGTATCGATA
1 CATGTATCGATA
7892154 CAATGTATCGATA
1 C-ATGTATCGATA
7892167 CA---AT-GA-A
1 CATGTATCGATA
7892174 CATGTATCGATA
1 CATGTATCGATA
7892186 CAATGTATCGATA
1 C-ATGTATCGATA
7892199 CA---AT-GA-A
1 CATGTATCGATA
7892206 CATGTATCGATA
1 CATGTATCGATA
7892218 CAATGTATCGATA
1 C-ATGTATCGATA
7892231 CAT
1 CAT
7892234 CTGGGTGTGT
Statistics
Matches: 81, Mismatches: 0, Indels: 36
0.69 0.00 0.31
Matches are distributed among these distances:
7 9 0.11
8 6 0.07
9 6 0.07
10 6 0.07
11 6 0.07
12 12 0.15
13 36 0.44
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (12 bp):
CATGTATCGATA
Found at i:7892165 original size:32 final size:32
Alignment explanation
Indices: 7892124--7892232 Score: 218
Period size: 32 Copynumber: 3.4 Consensus size: 32
7892114 TGCCAGTTTC
7892124 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
7892156 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
7892188 ATGTATCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAATGAACATGTATCGATACA
7892220 ATGTATCGATACA
1 ATGTATCGATACA
7892233 TCTGGGTGTG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 77 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (32 bp):
ATGTATCGATACAATGAACATGTATCGATACA
Found at i:7897004 original size:46 final size:46
Alignment explanation
Indices: 7896934--7897022 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
7896924 CTTTTGTTAA
*
7896934 ACACTCGATAAGCTTTAGACTTTGTTGAATAACCAAGAAAAATGCC
1 ACACTCGATAAGCTTTAGAATTTGTTGAATAACCAAGAAAAATGCC
7896980 ACACTCGATAAGCTTTAGAATTTGTTGAATAACCAAGAAAAAT
1 ACACTCGATAAGCTTTAGAATTTGTTGAATAACCAAGAAAAAT
7897023 ACCTTCATCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.27
Consensus pattern (46 bp):
ACACTCGATAAGCTTTAGAATTTGTTGAATAACCAAGAAAAATGCC
Found at i:7900933 original size:33 final size:33
Alignment explanation
Indices: 7900891--7900953 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
7900881 TTACAAGCAA
*
7900891 TGTATCGATACAAT-TCATCATGTATCGATAAAT
1 TGTATCGATACAATGT-ACCATGTATCGATAAAT
7900924 TGTATCGATACAATGTACCATGTATCGATA
1 TGTATCGATACAATGTACCATGTATCGATA
7900954 CAAACAGTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATAAAT
Found at i:7901713 original size:24 final size:23
Alignment explanation
Indices: 7901650--7901714 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
7901640 CCTAGATAAA
7901650 AATATTTTTCCCTTTTTCAAAGC
1 AATATTTTTCCCTTTTTCAAAGC
* ***
7901673 AAAATTTATTTTATTTTTCAAAGC
1 AATATTT-TTCCCTTTTTCAAAGC
*
7901697 AATATTTCTCCCCTTTTT
1 AATATTT-TTCCCTTTTT
7901715 TGTTATAGCA
Statistics
Matches: 31, Mismatches: 10, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
23 6 0.19
24 25 0.81
ACGTcount: A:0.28, C:0.18, G:0.03, T:0.51
Consensus pattern (23 bp):
AATATTTTTCCCTTTTTCAAAGC
Found at i:7903419 original size:21 final size:21
Alignment explanation
Indices: 7903395--7903436 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7903385 CGTTTTTGTT
*
7903395 AGTGATTTTGATG-AAAAATGA
1 AGTGA-TTTGAAGTAAAAATGA
7903416 AGTGATTTGAAGTAAAAATGA
1 AGTGATTTGAAGTAAAAATGA
7903437 GGAAATTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.45, C:0.00, G:0.24, T:0.31
Consensus pattern (21 bp):
AGTGATTTGAAGTAAAAATGA
Found at i:7903584 original size:13 final size:13
Alignment explanation
Indices: 7903566--7903592 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7903556 ATAGTAACCC
7903566 ATGTATCGATACA
1 ATGTATCGATACA
7903579 ATGTATCGATACA
1 ATGTATCGATACA
7903592 A
1 A
7903593 GGAATATTGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:7905279 original size:79 final size:79
Alignment explanation
Indices: 7905141--7905344 Score: 221
Period size: 79 Copynumber: 2.6 Consensus size: 79
7905131 GAGATAATAA
* * * * * ** * *
7905141 CGGGGTTGGAGTGTTCCCTTGAAAATAACAGGGCTGGAGTATCCCCGGTTGTGAAAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAAT-A
*
7905206 -TTAGAAAAAAAAAT
65 TTTAGAAAAAAAAAC
* *
7905220 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATAT
* ** * *
7905285 TTTGGGAATAAAGC
66 TTAGAAAAAAAAAC
* *
7905299 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCC
7905345 GATGAAATAA
Statistics
Matches: 104, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
78 1 0.01
79 103 0.99
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATAT
TTAGAAAAAAAAAC
Found at i:7905339 original size:28 final size:28
Alignment explanation
Indices: 7905299--7905370 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
7905289 GGAATAAAGC
** *
7905299 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
7905327 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
7905355 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
7905371 TCGACTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:7905657 original size:210 final size:206
Alignment explanation
Indices: 7905411--7905786 Score: 483
Period size: 210 Copynumber: 1.8 Consensus size: 206
7905401 TAAAATCGAA
* *
7905411 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTGAAAATAAAATCGGGGTTGAAGTATCC
1 GTTGGAGTATCCCCGATTAAAGGAAAATTAGTGTTTTTGAAAATAAAATCGGAGTTGAAGTATCC
* * *
7905475 CCGATTGTGGAAAAATTAGTGTTTT-AGCAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAA
66 CCGATTAT--AAAAATTAGTGTTTTGA-AAATAAAACCGGAGTTGGA-TATCCCCGATTAT-AAA
* *
7905539 AATCAATATTTTGGAAATAAAGTCAGG-GTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTA
126 AATCAATATTTTGAAAATAAAATC-GGAGTTGGA-TATCCCCTCGGAAATAACAGGGTTGGAGTA
7905603 TCCCCGATGATCAACGGG
189 TCCCCGATGATCAACGGG
* * *
7905621 GTTGGAGTATCCCCGATTGTGAA-G-AAATTAGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTA
1 GTTGGAGTATCCCCGA-T-TAAAGGAAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTGAAGTA
* * *
7905684 TCCCCGATTATAGAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGATATCCCCGATTATAGAAA
63 TCCCCGATTATAAAAATTAGTGTTTTGAAAATAAAACCGGAGTTGGATATCCCCGATTATAAAAA
* * *
7905749 TTAGTGTTTTGAAAATAAAATCGGAGTTGGATATCCCC
128 TCAATATTTTGAAAATAAAATCGGAGTTGGATATCCCC
7905787 GATTATAGAA
Statistics
Matches: 144, Mismatches: 16, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
207 9 0.06
208 27 0.19
209 13 0.09
210 54 0.38
211 3 0.02
212 38 0.26
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (206 bp):
GTTGGAGTATCCCCGATTAAAGGAAAATTAGTGTTTTTGAAAATAAAATCGGAGTTGAAGTATCC
CCGATTATAAAAATTAGTGTTTTGAAAATAAAACCGGAGTTGGATATCCCCGATTATAAAAATCA
ATATTTTGAAAATAAAATCGGAGTTGGATATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCGA
TGATCAACGGG
Found at i:7905754 original size:49 final size:50
Alignment explanation
Indices: 7905400--7905818 Score: 350
Period size: 52 Copynumber: 8.1 Consensus size: 50
7905390 ATTTTTGGTC
* * *
7905400 ATAAAATCGAAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAA
1 ATAAAATCGGAGTTGGAGTATCCCCGATTATA-G-AAATTAGTGTTTTGAAA
* * * * *
7905452 ATAAAATCGGGGTTGAAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCA
1 ATAAAATCGGAGTTGGAGTATCCCCGATTAT--AGAAATTAGTGTTTTGA-AA
* * * * * * *
7905504 ATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAA
1 ATAAAATCGGAGTTGGAGTATCCCCGATTAT-AGAAATTAGTGTTTTGAAA
* * * * *** **
7905555 ATAAAGTCAGG-GTTGGAGTATCCCCTCGGA-AATA-ACAGGGTTGGAGTATCCCCGATG
1 ATAAAATC-GGAGTTGGAGTAT-CCC-C-GATTATAGA-A--ATT--AGTGT-TTTGAAA
* * * *
7905612 AT-CAA-CGGGGTTGGAGTATCCCCGATTGTGAAGAAATTAGTGTTTTTTGGAA
1 ATAAAATCGGAGTTGGAGTATCCCCGATTAT--AGAAATTAGTG--TTTTGAAA
7905664 ATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAATTAGTGTTTTGAAA
1 ATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAATTAGTGTTTTGAAA
7905714 ATAAAATCGGAGTTGGA-TATCCCCGATTATAGAAATTAGTGTTTTGAAA
1 ATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAATTAGTGTTTTGAAA
7905763 ATAAAATCGGAGTTGGA-TATCCCCGATTATAGAAATTAGTGTTTTGAAA
1 ATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAATTAGTGTTTTGAAA
7905812 ATAAAAT
1 ATAAAAT
7905819 TGTGGAGAAT
Statistics
Matches: 300, Mismatches: 44, Indels: 49
0.76 0.11 0.12
Matches are distributed among these distances:
49 88 0.29
50 24 0.08
51 35 0.12
52 90 0.30
53 10 0.03
54 31 0.10
55 13 0.04
56 6 0.02
57 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.30
Consensus pattern (50 bp):
ATAAAATCGGAGTTGGAGTATCCCCGATTATAGAAATTAGTGTTTTGAAA
Found at i:7905798 original size:98 final size:102
Alignment explanation
Indices: 7905400--7905818 Score: 344
Period size: 103 Copynumber: 4.1 Consensus size: 102
7905390 ATTTTTGGTC
* * *
7905400 ATAAAATCGAAGTTGGAGTATCCCCGATTA-AAGGAAAATTGGTG-TTTTGAAAATAAAATCGGG
1 ATAAAATCGGAGTTGGAGTATCCCCGATTATAA-G-AAATTAGTGTTTTTGAAAATAAAATCGGA
* * * *
7905463 GTTGAAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCA
64 GTTGGAGTATCCCCGATTAT--AGAAATTAGTGTTTTGA-AA
* * * * * * *
7905504 ATAAAACCGGGGTTGGAGTATCCCCGATTATGAA-AAATCAAT-ATTTTGGAAATAAAGTCAGG-
1 ATAAAATCGGAGTTGGAGTATCCCCGATTAT-AAGAAATTAGTGTTTTTGAAAATAAAATC-GGA
* * * *** **
7905566 GTTGGAGTATCCCCTCGGA-AATA-ACAGGGTTGGAGTATCCCCGATG
64 GTTGGAGTAT-CCC-C-GATTATAGA-A--ATT--AGTGT-TTTGAAA
* * * *
7905612 AT-CAA-CGGGGTTGGAGTATCCCCGATTGTGAAGAAATTAGTGTTTTTTGGAAATAAAATCGGA
1 ATAAAATCGGAGTTGGAGTATCCCCGATTAT-AAGAAATTAGTG-TTTTTGAAAATAAAATCGGA
7905675 GTTGGAGTATCCCCGATTATAGAAATTAGTGTTTTGAAA
64 GTTGGAGTATCCCCGATTATAGAAATTAGTGTTTTGAAA
7905714 ATAAAATCGGAGTTGGA-TATCCCCGATTAT-AGAAATTAGTG-TTTTGAAAATAAAATCGGAGT
1 ATAAAATCGGAGTTGGAGTATCCCCGATTATAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGT
7905776 TGGA-TATCCCCGATTATAGAAATTAGTGTTTTGAAA
66 TGGAGTATCCCCGATTATAGAAATTAGTGTTTTGAAA
7905812 ATAAAAT
1 ATAAAAT
7905819 TGTGGAGAAT
Statistics
Matches: 257, Mismatches: 36, Indels: 50
0.75 0.10 0.15
Matches are distributed among these distances:
98 39 0.15
99 24 0.09
101 11 0.04
102 5 0.02
103 48 0.19
104 41 0.16
105 6 0.02
106 32 0.12
107 17 0.07
108 8 0.03
109 26 0.10
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.30
Consensus pattern (102 bp):
ATAAAATCGGAGTTGGAGTATCCCCGATTATAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGT
TGGAGTATCCCCGATTATAGAAATTAGTGTTTTGAAA
Found at i:7908176 original size:13 final size:13
Alignment explanation
Indices: 7908158--7908182 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7908148 AAAATTTCCA
7908158 AATGTATCGATAC
1 AATGTATCGATAC
7908171 AATGTATCGATA
1 AATGTATCGATA
7908183 TACAGAAAAA
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:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:7908321 original size:21 final size:20
Alignment explanation
Indices: 7908295--7908351 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
7908285 GTTGGGACCT
*
7908295 TGTATCGATACATTTATAGAA
1 TGTATCGATACATTTACA-AA
*
7908316 TGTATCGATACATTCCACAAA
1 TGTATCGATACATT-TACAAA
7908337 TGTATCGATACATTT
1 TGTATCGATACATTT
7908352 GGATAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATTTACAAA
Found at i:7910287 original size:21 final size:21
Alignment explanation
Indices: 7910254--7910294 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7910244 CTAAGTAAAA
7910254 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
7910275 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
7910295 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:7910359 original size:20 final size:19
Alignment explanation
Indices: 7910334--7910404 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
7910324 ACCCTGAAAA
7910334 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
7910354 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
7910373 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
7910394 GTATCGATACA
1 GTATCGATACA
7910405 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:7910457 original size:53 final size:53
Alignment explanation
Indices: 7910374--7910510 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
7910364 AAATTGCATA
7910374 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
7910428 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
7910481 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
7910511 TTGGAAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:7910553 original size:10 final size:10
Alignment explanation
Indices: 7910534--7910564 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
7910524 AATCTCATTT
7910534 TCACTGTTCA
1 TCACTGTTCA
*
7910544 TCACTATTCA
1 TCACTGTTCA
7910554 TCACTGTTCA
1 TCACTGTTCA
7910564 T
1 T
7910565 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:7910586 original size:21 final size:22
Alignment explanation
Indices: 7910552--7910606 Score: 103
Period size: 21 Copynumber: 2.5 Consensus size: 22
7910542 CATCACTATT
7910552 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
7910574 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
7910595 CATCACTGTTCA
1 CATCACTGTTCA
7910607 CACTGTTCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.66
22 11 0.34
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.36
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:7910701 original size:13 final size:13
Alignment explanation
Indices: 7910683--7910708 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7910673 ACATATTTGT
7910683 GTGTATCGATACA
1 GTGTATCGATACA
7910696 GTGTATCGATACA
1 GTGTATCGATACA
7910709 TCATAAATAG
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:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:7915535 original size:13 final size:13
Alignment explanation
Indices: 7915517--7915541 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7915507 CAATTCATCA
7915517 TGTATCGATACAT
1 TGTATCGATACAT
7915530 TGTATCGATACA
1 TGTATCGATACA
7915542 AACAGTGGTA
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:7915597 original size:20 final size:20
Alignment explanation
Indices: 7915571--7915626 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
7915561 CTGCCTAGTT
7915571 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAATTGA
7915590 TCCATGTATCGATACAA-TGA
1 T-CATGTATCGATACAATTGA
*
7915610 TCATGTATCGAAACAAT
1 TCATGTATCGATACAAT
7915627 ATATCGATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (20 bp):
TCATGTATCGATACAATTGA
Found at i:7928608 original size:58 final size:58
Alignment explanation
Indices: 7928546--7928709 Score: 152
Period size: 58 Copynumber: 2.8 Consensus size: 58
7928536 AAAATGCATT
* * * *
7928546 AAATTGCATAAAAGTCTTTAGATCATGCAAAATAATCTAAATAACC-CTAACATTTATA
1 AAATTACATAAAAGTCTTTAGATCATGAAAAATAATCAAAATAACCTC-AACATTCATA
** * * * * *
7928604 AAATTACATAAAAGTCCCTATATCATGGAAAATGATCAAAATGATCTCAACATTCATA
1 AAATTACATAAAAGTCTTTAGATCATGAAAAATAATCAAAATAACCTCAACATTCATA
* * * *
7928662 AAATTATATGAAAGT-TTCTAGATCATGAAAAATGACCAAAATGAACCT
1 AAATTACATAAAAGTCTT-TAGATCATGAAAAATAATCAAAAT-AACCT
7928710 AAAATGCAAG
Statistics
Matches: 84, Mismatches: 19, Indels: 5
0.78 0.18 0.05
Matches are distributed among these distances:
58 80 0.95
59 4 0.05
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (58 bp):
AAATTACATAAAAGTCTTTAGATCATGAAAAATAATCAAAATAACCTCAACATTCATA
Found at i:7928729 original size:58 final size:58
Alignment explanation
Indices: 7928662--7928780 Score: 132
Period size: 58 Copynumber: 2.1 Consensus size: 58
7928652 AACATTCATA
* * * *
7928662 AAATTATATGAAAGTTTCTAGATCATGAAAAATGACCAAAATGAA-CCTAAAATGCAAG
1 AAATCATATGAAAGGTTATAAATCATGAAAAATGACCAAAAT-AACCCTAAAATGCAAG
* * ** * *
7928720 AAATCATATGAATGGTTATAAATCATGGAAAATGATTAGAATAACCCTAAAATGCATG
1 AAATCATATGAAAGGTTATAAATCATGAAAAATGACCAAAATAACCCTAAAATGCAAG
7928778 AAA
1 AAA
7928781 ATTGCAAAGT
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
57 2 0.04
58 48 0.96
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (58 bp):
AAATCATATGAAAGGTTATAAATCATGAAAAATGACCAAAATAACCCTAAAATGCAAG
Found at i:7937590 original size:50 final size:50
Alignment explanation
Indices: 7937536--7937755 Score: 325
Period size: 50 Copynumber: 4.4 Consensus size: 50
7937526 ATGTTTAGAA
** * *
7937536 TCAACAATTACGATTACCTTTCTCTATTGTCAAAGGTTGGTGAAGAATAG
1 TCAACAATTACGACCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAATAG
*
7937586 TCAACAATTACGACCACCTCTCTCGATTGTCAAAAGTTGGTG-AGAAATAG
1 TCAACAATTACGACCACCTCTCTCGATTGTCAAAGGTTGGTGAAG-AATAG
* * *
7937636 TTAACAATTACGGCCACCTCTCTCGATTGTCAAAGGTTGGTGAGGAATAG
1 TCAACAATTACGACCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAATAG
* *
7937686 TCAACAATTACGGCCACCTCTTTCGATTGTCAAAGGTTGGTGAAGAATAG
1 TCAACAATTACGACCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAATAG
*
7937736 TTAACAATTACGACCACCTC
1 TCAACAATTACGACCACCTC
7937756 ATTTGCACCC
Statistics
Matches: 154, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
49 2 0.01
50 151 0.98
51 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (50 bp):
TCAACAATTACGACCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAATAG
Found at i:7942213 original size:99 final size:100
Alignment explanation
Indices: 7942035--7942269 Score: 321
Period size: 99 Copynumber: 2.4 Consensus size: 100
7942025 AGATGCTTAG
* * * * * *
7942035 AGTCAACAATTACGGTCACCTTTCTCTATTATCAAAGGTTGGTGAAGAATAGCCAACAATTACGA
1 AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGATTGATGAAGAATAGCCAACAATTACGA
*
7942100 CCACCTCTTTCGATTGTCAAAAGTT-AGTGAAGAAT
66 CCACCTCTCTCGATTGTCAAAAGTTGA-TGAAGAAT
* *
7942135 AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGATTGATG-AGGATAGTCAACAATTACGA
1 AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGATTGATGAAGAATAGCCAACAATTACGA
*
7942199 CCACCTCTCTCGATTGTCAAAGGTTGATGAAGAAT
66 CCACCTCTCTCGATTGTCAAAAGTTGATGAAGAAT
* * * *
7942234 AGTTAACAATTACGACTACCTCTCTCGATTGTCAAA
1 AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAA
7942270 AGTTGGTGAA
Statistics
Matches: 120, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
99 81 0.68
100 39 0.32
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (100 bp):
AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGATTGATGAAGAATAGCCAACAATTACGA
CCACCTCTCTCGATTGTCAAAAGTTGATGAAGAAT
Found at i:7942305 original size:149 final size:149
Alignment explanation
Indices: 7942035--7942306 Score: 384
Period size: 149 Copynumber: 1.8 Consensus size: 149
7942025 AGATGCTTAG
** * * *
7942035 AGTCAACAATTACGGTCACCTTTCTCTATTATCAAAGGTTGGTGAAGAATAGCCAACAATTACGA
1 AGTCAACAATTACGACCACCTCTCTCGATTATCAAAGGTTGATGAAGAATAGCCAACAATTACGA
* * * *
7942100 CCACCTCTTTCGATTGTCAAAAGTTAGTGAAGAATAGTCAACAATTACGGCCACCTCTCTCAATT
66 CCACCTCTCTCGATTGTCAAAAGTTAGTGAAGAATAATCAACAATTACGACAACCTCTCTCAATT
7942165 GTCAAAGATTGATGAGGAT
131 GTCAAAGATTGATGAGGAT
* **
7942184 AGTCAACAATTACGACCACCTCTCTCGATTGTCAAAGGTTGATGAAGAATAGTTAACAATTACGA
1 AGTCAACAATTACGACCACCTCTCTCGATTATCAAAGGTTGATGAAGAATAGCCAACAATTACGA
* * * *
7942249 CTACCTCTCTCGATTGTCAAAAGTTGGTGAA-ATATAATTAACAATTACGATAACCTCT
66 CCACCTCTCTCGATTGTCAAAAGTTAGTGAAGA-ATAATCAACAATTACGACAACCTCT
7942307 TTTGCACCTA
Statistics
Matches: 106, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
148 1 0.01
149 105 0.99
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.29
Consensus pattern (149 bp):
AGTCAACAATTACGACCACCTCTCTCGATTATCAAAGGTTGATGAAGAATAGCCAACAATTACGA
CCACCTCTCTCGATTGTCAAAAGTTAGTGAAGAATAATCAACAATTACGACAACCTCTCTCAATT
GTCAAAGATTGATGAGGAT
Found at i:7942306 original size:50 final size:50
Alignment explanation
Indices: 7942035--7942298 Score: 318
Period size: 50 Copynumber: 5.3 Consensus size: 50
7942025 AGATGCTTAG
** * * * *
7942035 AGTCAACAATTACGGTCACCTTTCTCTATTATCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGACCACCTCTCTCGATTGTCAAAAGTTGGTGAAGAAT
* * *
7942085 AGCCAACAATTACGACCACCTCTTTCGATTGTCAAAAGTTAGTGAAGAAT
1 AGTCAACAATTACGACCACCTCTCTCGATTGTCAAAAGTTGGTGAAGAAT
* * * *
7942135 AGTCAACAATTACGGCCACCTCTCTCAATTGTC-AAAGATTGATG-AGGAT
1 AGTCAACAATTACGACCACCTCTCTCGATTGTCAAAAG-TTGGTGAAGAAT
* *
7942184 AGTCAACAATTACGACCACCTCTCTCGATTGTCAAAGGTTGATGAAGAAT
1 AGTCAACAATTACGACCACCTCTCTCGATTGTCAAAAGTTGGTGAAGAAT
* *
7942234 AGTTAACAATTACGACTACCTCTCTCGATTGTCAAAAGTTGGTGAA-ATAT
1 AGTCAACAATTACGACCACCTCTCTCGATTGTCAAAAGTTGGTGAAGA-AT
* *
7942284 AATTAACAATTACGA
1 AGTCAACAATTACGA
7942299 TAACCTCTTT
Statistics
Matches: 185, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
49 46 0.25
50 139 0.75
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (50 bp):
AGTCAACAATTACGACCACCTCTCTCGATTGTCAAAAGTTGGTGAAGAAT
Found at i:7947063 original size:40 final size:38
Alignment explanation
Indices: 7946963--7947078 Score: 107
Period size: 34 Copynumber: 3.1 Consensus size: 38
7946953 ATATATAACA
* *
7946963 AATAATTAAAAATATTAAAATTATACTTATATTAAATAAT
1 AATAATT-AAAATATTAAAA-TATATTTATGTTAAATAAT
* *
7947003 AA-AA-T-ATATATT-AAATATATTTATGTTGAATAAT
1 AATAATTAAAATATTAAAATATATTTATGTTAAATAAT
*
7947037 AATAATTAAAATTATTAAAATCATATTTGTGTTTAAA-AAT
1 AATAATTAAAA-TATTAAAAT-ATATTTATG-TTAAATAAT
7947077 AA
1 AA
7947079 ATTAATAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
34 18 0.29
35 5 0.08
36 7 0.11
37 2 0.03
38 5 0.08
39 6 0.10
40 15 0.24
41 4 0.06
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (38 bp):
AATAATTAAAATATTAAAATATATTTATGTTAAATAAT
Found at i:7947111 original size:17 final size:16
Alignment explanation
Indices: 7947073--7947124 Score: 65
Period size: 17 Copynumber: 3.3 Consensus size: 16
7947063 TTGTGTTTAA
7947073 AAAT-AAATTAATAAAT
1 AAATAAAATTAA-AAAT
7947089 -AA-AAAATTAAAAATT
1 AAATAAAATTAAAAA-T
7947104 AAATAAAATTAAAAAT
1 AAATAAAATTAAAAAT
7947120 AAATA
1 AAATA
7947125 TTACTTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 3 0.09
15 10 0.31
16 8 0.25
17 11 0.34
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATAAAATTAAAAAT
Found at i:7948613 original size:3 final size:3
Alignment explanation
Indices: 7948605--7948633 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
7948595 AAAGCCCGTT
7948605 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
7948634 TTAATTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:7948685 original size:23 final size:23
Alignment explanation
Indices: 7948659--7948705 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
7948649 CAACTCCTCG
7948659 CTATCTCTTCAATCTCTATCTTT
1 CTATCTCTTCAATCTCTATCTTT
7948682 CTATCTCTTCAATCTCTATCTTT
1 CTATCTCTTCAATCTCTATCTTT
7948705 C
1 C
7948706 CTAAACTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.32, G:0.00, T:0.51
Consensus pattern (23 bp):
CTATCTCTTCAATCTCTATCTTT
Found at i:7950704 original size:29 final size:29
Alignment explanation
Indices: 7950672--7950779 Score: 84
Period size: 29 Copynumber: 3.8 Consensus size: 29
7950662 AAAACATCGA
7950672 AAATAACTAAAATGATCTTAAAATACATG
1 AAATAACTAAAATGATCTTAAAATACATG
* *
7950701 AAATTACATAAAA-G-TCTCT-AAA-ACATAA
1 AAATAAC-TAAAATGATCT-TAAAATACAT-G
*
7950729 AAATAACTAAAATGA-CTTTAAAATGCATG
1 AAATAACTAAAATGATC-TTAAAATACATG
**
7950758 AAATTGC-ATAAATGATCTTAAA
1 AAATAACTA-AAATGATCTTAAA
7950780 TCATGGCAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
27 9 0.15
28 16 0.26
29 28 0.45
30 9 0.15
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.28
Consensus pattern (29 bp):
AAATAACTAAAATGATCTTAAAATACATG
Found at i:7950722 original size:58 final size:57
Alignment explanation
Indices: 7950639--7950826 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 57
7950629 GGCTAAATTG
* *
7950639 CATGGAATTACATAATAGT-TCCTAAAACATCGAAAATAACTAAAATGATCTTAAAATA
1 CATGAAATTACATAAAAGTCT-CTAAAACAT-GAAAATAACTAAAATGATCTTAAAATA
* *
7950697 CATGAAATTACATAAAAGTCTCTAAAACATAAAAATAACTAAAATGA-CTTTAAAATG
1 CATGAAATTACATAAAAGTCTCTAAAACATGAAAATAACTAAAATGATC-TTAAAATA
* * * * * * *
7950754 CATGAAATTGCATAAATGATCT-TAAATCATGGCAAATGACTACAATGATAC-AAAAATGA
1 CATGAAATTACATAAAAG-TCTCTAAAACAT-GAAAATAACTAAAATGAT-CTTAAAAT-A
7950813 -ATGAAATTACATAA
1 CATGAAATTACATAA
7950827 GAACTCCTAA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
56 1 0.01
57 46 0.42
58 60 0.55
59 1 0.01
60 1 0.01
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.27
Consensus pattern (57 bp):
CATGAAATTACATAAAAGTCTCTAAAACATGAAAATAACTAAAATGATCTTAAAATA
Found at i:7950750 original size:57 final size:58
Alignment explanation
Indices: 7950639--7950769 Score: 178
Period size: 57 Copynumber: 2.3 Consensus size: 58
7950629 GGCTAAATTG
* * *
7950639 CATGGAATTACATAATAGTTCCTAAAACATCGAAAATAACTAAAATGATCTTAAAATA
1 CATGAAATTACATAAAAGTTCCTAAAACATCAAAAATAACTAAAATGATCTTAAAATA
*
7950697 CATGAAATTACATAAAAG-TCTCTAAAACAT-AAAAATAACTAAAATGA-CTTTAAAATG
1 CATGAAATTACATAAAAGTTC-CTAAAACATCAAAAATAACTAAAATGATC-TTAAAATA
*
7950754 CATGAAATTGCATAAA
1 CATGAAATTACATAAA
7950770 TGATCTTAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
56 1 0.02
57 40 0.61
58 25 0.38
ACGTcount: A:0.52, C:0.13, G:0.08, T:0.27
Consensus pattern (58 bp):
CATGAAATTACATAAAAGTTCCTAAAACATCAAAAATAACTAAAATGATCTTAAAATA
Found at i:7950918 original size:52 final size:53
Alignment explanation
Indices: 7950821--7950924 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 53
7950811 GAATGAAATT
* *
7950821 ACATAAGAACTCCTAAATCGTGAAAAATTACTAAAGTAGTACTAAAATGCATG
1 ACATAAGAACTCCTAAATCGTGAAAAATAACTAAAATAGTACTAAAATGCATG
* * * *
7950874 ACATAATAACTCCTAAAT-TTTAAAAATAACTAAAATAGTTCTAAAATGCAT
1 ACATAAGAACTCCTAAATCGTGAAAAATAACTAAAATAGTACTAAAATGCAT
7950925 AAAATTGCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
52 28 0.62
53 17 0.38
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (53 bp):
ACATAAGAACTCCTAAATCGTGAAAAATAACTAAAATAGTACTAAAATGCATG
Found at i:7950965 original size:47 final size:45
Alignment explanation
Indices: 7950914--7951015 Score: 125
Period size: 47 Copynumber: 2.2 Consensus size: 45
7950904 TAAAATAGTT
* *
7950914 CTAAAATGCATAAAATTGCATGACAAT-CTCTAAATCATGAAAAATTA
1 CTAAAATGCATAAAATTACAT-A-AATACT-TAAAACATGAAAAATTA
*
7950961 CTAAAATGTATAAAATTACATAAATAGACTTAAAACATGAAAAATTA
1 CTAAAATGCATAAAATTACATAAAT--ACTTAAAACATGAAAAATTA
7951008 CTAAAATG
1 CTAAAATG
7951016 ACACTAAAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
45 3 0.06
46 1 0.02
47 43 0.88
48 2 0.04
ACGTcount: A:0.53, C:0.12, G:0.08, T:0.27
Consensus pattern (45 bp):
CTAAAATGCATAAAATTACATAAATACTTAAAACATGAAAAATTA
Found at i:7952796 original size:15 final size:16
Alignment explanation
Indices: 7952742--7952786 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 16
7952732 GAATATTTTG
*
7952742 AAAATAAACAACAAAAAA
1 AAAATAAA-AAC-AATAA
7952760 TAAAATAAAAACAATAA
1 -AAAATAAAAACAATAA
7952777 AAAATAAAAA
1 AAAATAAAAA
7952787 GGAAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 10 0.40
17 4 0.16
18 3 0.12
19 8 0.32
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAATAAAAACAATAA
Found at i:7953354 original size:17 final size:17
Alignment explanation
Indices: 7953329--7953375 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
7953319 TATCAATTTT
7953329 ATTAATTTT-TATAATAA
1 ATTAATTTTATATAA-AA
*
7953346 ATTACTTTTATATAAAA
1 ATTAATTTTATATAAAA
7953363 ATTAATTTTATAT
1 ATTAATTTTATAT
7953376 CCTTTTGGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 22 0.81
18 5 0.19
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTAATTTTATATAAAA
Found at i:7958838 original size:1 final size:1
Alignment explanation
Indices: 7958834--7958858 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
7958824 CCCCCTAACA
7958834 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
7958859 AACTCCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:7965166 original size:13 final size:13
Alignment explanation
Indices: 7965135--7965159 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7965125 TCATGCTTTT
7965135 TATTTATAATATA
1 TATTTATAATATA
7965148 TATTTATAATAT
1 TATTTATAATAT
7965160 TAATTTACTC
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTTATAATATA
Found at i:7968196 original size:17 final size:19
Alignment explanation
Indices: 7968164--7968198 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
7968154 ATACAACCTA
7968164 AGTCAATATCAAAAGAAAT
1 AGTCAATATCAAAAGAAAT
7968183 AGTCAA-AT-AAAAGAAA
1 AGTCAATATCAAAAGAAA
7968199 GATTACCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.63, C:0.09, G:0.11, T:0.17
Consensus pattern (19 bp):
AGTCAATATCAAAAGAAAT
Found at i:7969789 original size:7 final size:7
Alignment explanation
Indices: 7969777--7969803 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
7969767 TTGATTAAAG
7969777 AAAAAAT
1 AAAAAAT
7969784 AAAAAAT
1 AAAAAAT
7969791 AAAAAAT
1 AAAAAAT
7969798 AAAAAA
1 AAAAAA
7969804 GAAGAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:7969794 original size:13 final size:14
Alignment explanation
Indices: 7969773--7969815 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
7969763 GAAATTGATT
7969773 AAAGAAAAAATAAA
1 AAAGAAAAAATAAA
*
7969787 AAATAAAAAATAAA
1 AAAGAAAAAATAAA
*
7969801 AAAG-AAGAATAAA
1 AAAGAAAAAATAAA
7969814 AA
1 AA
7969816 CATATTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (14 bp):
AAAGAAAAAATAAA
Done.