Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
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: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 37 of 55
Found at i:7378483 original size:25 final size:25
Alignment explanation
Indices: 7378447--7378501 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
7378437 AAAGCTGTTA
7378447 AGTT-TGCCAGCTAGGATAATAGAC
1 AGTTATGCCAGCTAGGATAATAGAC
* * *
7378471 AGTTATGCTAGCTAGGCTAGTAGAC
1 AGTTATGCCAGCTAGGATAATAGAC
*
7378496 GGTTAT
1 AGTTAT
7378502 AGTTTTACCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 4 0.15
25 22 0.85
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (25 bp):
AGTTATGCCAGCTAGGATAATAGAC
Found at i:7382876 original size:11 final size:11
Alignment explanation
Indices: 7382862--7382886 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7382852 CAAATAGGAT
7382862 TTTAATATTGG
1 TTTAATATTGG
7382873 TTTAATATTGG
1 TTTAATATTGG
7382884 TTT
1 TTT
7382887 TTTGGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (11 bp):
TTTAATATTGG
Found at i:7384382 original size:15 final size:15
Alignment explanation
Indices: 7384362--7384394 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
7384352 TGTAGGACCC
7384362 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
7384377 CTACATCCCGAAGGA
1 CTACATCCCGAAGGA
7384392 CTA
1 CTA
7384395 TTATACCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.18, T:0.15
Consensus pattern (15 bp):
CTACATCCCGAAGGA
Found at i:7384543 original size:23 final size:26
Alignment explanation
Indices: 7384506--7384574 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
7384496 TTCTCTTGTG
7384506 ATCATGTATCTCATATCAC-T-TCAT
1 ATCATGTATCTCATATCACATGTCAT
7384530 ATCATGT-TCTCATATCACATGTCAT
1 ATCATGTATCTCATATCACATGTCAT
* *
7384555 ATCA--CATATCATATCACATG
1 ATCATGTATCTCATATCACATG
7384575 AACATATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 21 0.52
25 8 0.20
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.38
Consensus pattern (26 bp):
ATCATGTATCTCATATCACATGTCAT
Found at i:7384556 original size:12 final size:12
Alignment explanation
Indices: 7384539--7384574 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
7384529 TATCATGTTC
7384539 TCATATCACATG
1 TCATATCACATG
*
7384551 TCATATCACATA
1 TCATATCACATG
7384563 TCATATCACATG
1 TCATATCACATG
7384575 AACATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (12 bp):
TCATATCACATG
Found at i:7385030 original size:64 final size:64
Alignment explanation
Indices: 7384898--7385050 Score: 168
Period size: 64 Copynumber: 2.4 Consensus size: 64
7384888 GAAGGTATGC
* * * * *
7384898 ATCGATGCACTACTGATGCATCGGTGCATAAAAGACATTCGATGTTTCATTATTAATGGGATGC
1 ATCGATGCACTACTAATGCATCGATGCATAAAAGACATTCGATGTTTCATTATTAAAGAGATGA
* ** *
7384962 ATCGATGCACTACTTATGCATCGATGCATGAATTG-CATTCGATGTTTTTATT-TTAAA-AGAGT
1 ATCGATGCACTACTAATGCATCGATGCAT-AAAAGACATTCGATG-TTTCATTATTAAAGAGA-T
7385024 GA
63 GA
*
7385026 ATCGATGCACTACCAATGCATCGAT
1 ATCGATGCACTACTAATGCATCGAT
7385051 ACACCTTCAA
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
63 2 0.03
64 65 0.86
65 9 0.12
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (64 bp):
ATCGATGCACTACTAATGCATCGATGCATAAAAGACATTCGATGTTTCATTATTAAAGAGATGA
Found at i:7390639 original size:23 final size:26
Alignment explanation
Indices: 7390602--7390670 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
7390592 TTCTCTTGTG
7390602 ATCATGTATCTCATATCAC-T-TCAT
1 ATCATGTATCTCATATCACATGTCAT
7390626 ATCATGT-TCTCATATCACATGTCAT
1 ATCATGTATCTCATATCACATGTCAT
* *
7390651 ATCA--CATATCATATCACATG
1 ATCATGTATCTCATATCACATG
7390671 AACATATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 21 0.52
25 8 0.20
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.38
Consensus pattern (26 bp):
ATCATGTATCTCATATCACATGTCAT
Found at i:7390652 original size:12 final size:12
Alignment explanation
Indices: 7390635--7390670 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
7390625 TATCATGTTC
7390635 TCATATCACATG
1 TCATATCACATG
*
7390647 TCATATCACATA
1 TCATATCACATG
7390659 TCATATCACATG
1 TCATATCACATG
7390671 AACATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (12 bp):
TCATATCACATG
Found at i:7391051 original size:64 final size:63
Alignment explanation
Indices: 7390978--7391134 Score: 183
Period size: 64 Copynumber: 2.5 Consensus size: 63
7390968 TAATGAAGGT
* * **
7390978 ATGCATCGATGCACTACTGATGCATCGGTGCAT-AAAAGACATTCGATG-TTTCATTATTAATGG
1 ATGCATCGATGCACTACTAATGCATCGATGCATGAAAAG-CATTCGATGTTTTCATT-TTAA-AA
7391041 G
63 G
* ** *
7391042 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTTTTATTTTAAAAG
1 ATGCATCGATGCACTACTAATGCATCGATGCATGAAAAGCATTCGATGTTTTCATTTTAAAAG
*
7391105 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACTAATGCATCGAT
7391135 ACACCTTCAA
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
63 2 0.02
64 70 0.86
65 9 0.11
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (63 bp):
ATGCATCGATGCACTACTAATGCATCGATGCATGAAAAGCATTCGATGTTTTCATTTTAAAAG
Found at i:7392126 original size:35 final size:35
Alignment explanation
Indices: 7392061--7392127 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
7392051 CATTGTTAAC
* **
7392061 TGTTAACTATCGTTAACTCTTAATTGTTAATCGTT
1 TGTTAACTATCGTTAACTATTAATCATTAATCGTT
*
7392096 TGTTAACTATTGTTAACTATTAATCATTAATC
1 TGTTAACTATCGTTAACTATTAATCATTAATC
7392128 ATCAGTGACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (35 bp):
TGTTAACTATCGTTAACTATTAATCATTAATCGTT
Found at i:7392559 original size:29 final size:28
Alignment explanation
Indices: 7392527--7392693 Score: 165
Period size: 29 Copynumber: 5.9 Consensus size: 28
7392517 GTATATATCA
* * *
7392527 TTATTGTAATTTATAAGAAGTTTTGATTT
1 TTATTGTAATTTACAAAAAGGTTTG-TTT
* * *
7392556 TTATTATGATTTATAAAAAGGTTTGTTCT
1 TTATTGTAATTTACAAAAAGGTTTGTT-T
* * *
7392585 TTGTTGTAATTTGCAAAAAGTTTTGTCTT
1 TTATTGTAATTTACAAAAAGGTTTGT-TT
* * *
7392614 TTATTTTAATTTACAATAAGGTTT-ATT
1 TTATTGTAATTTACAAAAAGGTTTGTTT
*
7392641 TTATTGTAATTTACAAAAAGGTTTGTCAT
1 TTATTGTAATTTACAAAAAGGTTTGT-TT
*
7392670 TTATTATAATTTACAAAAAGGTTT
1 TTATTGTAATTTACAAAAAGGTTT
7392694 ATCCTTTAAT
Statistics
Matches: 113, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
27 24 0.21
28 2 0.02
29 86 0.76
30 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.51
Consensus pattern (28 bp):
TTATTGTAATTTACAAAAAGGTTTGTTT
Found at i:7392661 original size:85 final size:87
Alignment explanation
Indices: 7392527--7392710 Score: 212
Period size: 85 Copynumber: 2.1 Consensus size: 87
7392517 GTATATATCA
* * * * * * *
7392527 TTATTGTAATTTATAAGAAGTTTTGATTTTTATTATGATTTATAAAAAGGTTTGTTC-TTTGTTG
1 TTATTTTAATTTACAAGAAGGTTTGATTTTTATTATAATTTACAAAAAGGTTTG-TCATTTATTA
* * * *
7392591 TAATTTGCAAAAAGTTTTGTCTT
65 TAATTTACAAAAAGGTTTATCCT
* *
7392614 TTATTTTAATTTACAATAAGGTTT-A-TTTTATTGTAATTTACAAAAAGGTTTGTCATTTATTAT
1 TTATTTTAATTTACAAGAAGGTTTGATTTTTATTATAATTTACAAAAAGGTTTGTCATTTATTAT
7392677 AATTTACAAAAAGGTTTATCCT
66 AATTTACAAAAAGGTTTATCCT
*
7392699 TTAATTTAATTT
1 TTATTTTAATTT
7392711 TTAAAAAGTA
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
84 2 0.02
85 59 0.72
86 1 0.01
87 20 0.24
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (87 bp):
TTATTTTAATTTACAAGAAGGTTTGATTTTTATTATAATTTACAAAAAGGTTTGTCATTTATTAT
AATTTACAAAAAGGTTTATCCT
Found at i:7392667 original size:56 final size:57
Alignment explanation
Indices: 7392522--7392719 Score: 213
Period size: 58 Copynumber: 3.5 Consensus size: 57
7392512 AAAAAGTATA
* * * * *
7392522 TATCATTATTGTAATTTATAAGAAGTTTTGAT-TTTTATTATGATTTATAAAAAGGTT
1 TATCTTTATTGTAATTTACAAAAAGTTTTG-TCTTTTATTATAATTTACAAAAAGGTT
* * * * *
7392579 TGTTCTTTGTTGTAATTTGCAAAAAGTTTTGTCTTTTATTTTAATTTACAATAAGGTT
1 T-ATCTTTATTGTAATTTACAAAAAGTTTTGTCTTTTATTATAATTTACAAAAAGGTT
* *
7392637 TAT-TTTATTGTAATTTACAAAAAGGTTTGTCATTTATTATAATTTACAAAAAGGTT
1 TATCTTTATTGTAATTTACAAAAAGTTTTGTCTTTTATTATAATTTACAAAAAGGTT
**
7392693 TATCCTTTAATT-TAATTTTTAAAAAGT
1 TAT-CTTT-ATTGTAATTTACAAAAAGT
7392720 AGCGACGATA
Statistics
Matches: 116, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
56 50 0.43
57 3 0.03
58 60 0.52
59 3 0.03
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (57 bp):
TATCTTTATTGTAATTTACAAAAAGTTTTGTCTTTTATTATAATTTACAAAAAGGTT
Found at i:7392701 original size:29 final size:29
Alignment explanation
Indices: 7392555--7392710 Score: 156
Period size: 29 Copynumber: 5.4 Consensus size: 29
7392545 AGTTTTGATT
* * *
7392555 TTTATTATGATTTATAAAAAGGTTTGTTC
1 TTTATTATAATTTACAAAAAGGTTTGTCC
* * * * *
7392584 TTTGTTGTAATTTGCAAAAAGTTTTGTCT
1 TTTATTATAATTTACAAAAAGGTTTGTCC
* * *
7392613 TTTATTTTAATTTACAATAAGGTTTAT--
1 TTTATTATAATTTACAAAAAGGTTTGTCC
* *
7392640 TTTATTGTAATTTACAAAAAGGTTTGTCA
1 TTTATTATAATTTACAAAAAGGTTTGTCC
*
7392669 TTTATTATAATTTACAAAAAGGTTTATCC
1 TTTATTATAATTTACAAAAAGGTTTGTCC
7392698 TTTAATT-TAATTT
1 TTT-ATTATAATTT
7392711 TTAAAAAGTA
Statistics
Matches: 104, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
27 24 0.23
29 77 0.74
30 3 0.03
ACGTcount: A:0.32, C:0.06, G:0.11, T:0.51
Consensus pattern (29 bp):
TTTATTATAATTTACAAAAAGGTTTGTCC
Found at i:7402605 original size:25 final size:26
Alignment explanation
Indices: 7402554--7402605 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
7402544 ATAACATGGG
*
7402554 CATTTTCACTTATCTCATTTCACTATA
1 CATTTTCAC-TATCACATTTCACTATA
7402581 CATTTTCA-TATCACATGTTCA-TATA
1 CATTTTCACTATCACAT-TTCACTATA
7402606 AGCTCATAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 11 0.48
26 4 0.17
27 8 0.35
ACGTcount: A:0.29, C:0.23, G:0.02, T:0.46
Consensus pattern (26 bp):
CATTTTCACTATCACATTTCACTATA
Found at i:7403258 original size:20 final size:20
Alignment explanation
Indices: 7403233--7403290 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
7403223 TTTCCCTTGA
7403233 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATTCTAC
*
7403253 AGTGCATCGATGCACTCTAC
1 AGTGCATCGATGCATTCTAC
7403273 AGTGCATCGATGCATTCT
1 AGTGCATCGATGCATTCT
7403291 TTGACATGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:7407019 original size:24 final size:23
Alignment explanation
Indices: 7406974--7407021 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
7406964 ATTTAGAATG
7406974 TAATATATTATATTCTACTAAAT
1 TAATATATTATATTCTACTAAAT
* * *
7406997 TAATATTTTAGTATTTTATTAAAT
1 TAATATATTA-TATTCTACTAAAT
7407021 T
1 T
7407022 TTTTATATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (23 bp):
TAATATATTATATTCTACTAAAT
Found at i:7412490 original size:2 final size:2
Alignment explanation
Indices: 7412478--7412519 Score: 68
Period size: 2 Copynumber: 21.0 Consensus size: 2
7412468 AAATATGAAC
7412478 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
7412520 TTTGAGATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 35 0.92
3 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7414681 original size:18 final size:19
Alignment explanation
Indices: 7414643--7414689 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
7414633 CGAAACCGGT
7414643 TTTTTCGGTTCGGTTCGGG
1 TTTTTCGGTTCGGTTCGGG
7414662 TTTTTCGGTTCGGTTC-GG
1 TTTTTCGGTTCGGTTCGGG
7414680 TTTTTCGGTT
1 TTTTTCGGTT
7414690 TTTCAATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.00, C:0.15, G:0.32, T:0.53
Consensus pattern (19 bp):
TTTTTCGGTTCGGTTCGGG
Found at i:7416077 original size:140 final size:140
Alignment explanation
Indices: 7415825--7416104 Score: 542
Period size: 140 Copynumber: 2.0 Consensus size: 140
7415815 TATTTGACAT
*
7415825 TTAGTATTCACACCCCTGACATTTCAATTGCTCAAGAAATTACAACAATTCTTTTATCACCGATG
1 TTAGTATTCACACCCCTGACATTCCAATTGCTCAAGAAATTACAACAATTCTTTTATCACCGATG
7415890 CCATTTGATTCGTGCTAATCAGATCACTATTAAATTACCTAAAAAGGTCTAGCGGCAATACATAA
66 CCATTTGATTCGTGCTAATCAGATCACTATTAAATTACCTAAAAAGGTCTAGCGGCAATACATAA
7415955 AACTATCCAA
131 AACTATCCAA
7415965 TTAGTATTCACACCCCTGACATTCCAATTGCTCAAGAAATTACAACAATTCTTTTATCACCGATG
1 TTAGTATTCACACCCCTGACATTCCAATTGCTCAAGAAATTACAACAATTCTTTTATCACCGATG
*
7416030 TCATTTGATTCGTGCTAATCAGATCACTATTAAATTACCTAAAAAGGTCTAGCGGCAATACATAA
66 CCATTTGATTCGTGCTAATCAGATCACTATTAAATTACCTAAAAAGGTCTAGCGGCAATACATAA
7416095 AACTATCCAA
131 AACTATCCAA
7416105 ATTAAGAGGG
Statistics
Matches: 138, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
140 138 1.00
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.31
Consensus pattern (140 bp):
TTAGTATTCACACCCCTGACATTCCAATTGCTCAAGAAATTACAACAATTCTTTTATCACCGATG
CCATTTGATTCGTGCTAATCAGATCACTATTAAATTACCTAAAAAGGTCTAGCGGCAATACATAA
AACTATCCAA
Found at i:7417212 original size:18 final size:17
Alignment explanation
Indices: 7417176--7417216 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
7417166 AAACAAAGAT
**
7417176 TTTTTTCATTTTATTTA
1 TTTTTTCATTTTAAATA
7417193 TTATTTTCATTTTAAATA
1 TT-TTTTCATTTTAAATA
7417211 TTTTTT
1 TTTTTT
7417217 GGGCGCTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTTCATTTTAAATA
Found at i:7431420 original size:3 final size:3
Alignment explanation
Indices: 7431414--7431489 Score: 102
Period size: 3 Copynumber: 25.0 Consensus size: 3
7431404 CATTTGATTT
*
7431414 TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
7431460 TTA TTA TTTA TTA TTAA TT- TTA TTA -TA TTA
1 TTA TTA -TTA TTA TT-A TTA TTA TTA TTA TTA
7431490 CAGGCCCAAT
Statistics
Matches: 66, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
2 4 0.06
3 53 0.80
4 9 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:7431441 original size:19 final size:19
Alignment explanation
Indices: 7431417--7431489 Score: 98
Period size: 19 Copynumber: 3.9 Consensus size: 19
7431407 TTGATTTTTA
7431417 TTATTATTATTATTATTAT
1 TTATTATTATTATTATTAT
7431436 TTATTATTATTATTATTA-
1 TTATTATTATTATTATTAT
*
7431454 TTAATATTATTATTTATTAT
1 TTATTATTATTA-TTATTAT
*
7431474 TAATT-TTATTA-TATTA
1 TTATTATTATTATTATTA
7431490 CAGGCCCAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
17 5 0.10
18 11 0.22
19 30 0.61
20 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATTATTATTATTATTAT
Found at i:7431452 original size:31 final size:32
Alignment explanation
Indices: 7431415--7431489 Score: 120
Period size: 31 Copynumber: 2.4 Consensus size: 32
7431405 ATTTGATTTT
7431415 TATTATTATTATTATTATTATTTATTATT-AT
1 TATTATTATTATTATTATTATTTATTATTAAT
*
7431446 TATTATTATTAATATTATTATTTATTATTAAT
1 TATTATTATTATTATTATTATTTATTATTAAT
7431478 T-TTATTA-TATTA
1 TATTATTATTATTA
7431490 CAGGCCCAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
30 4 0.10
31 34 0.83
32 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (32 bp):
TATTATTATTATTATTATTATTTATTATTAAT
Found at i:7432922 original size:12 final size:12
Alignment explanation
Indices: 7432905--7432933 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
7432895 TGTTTACTTT
7432905 TTATTATTACTA
1 TTATTATTACTA
7432917 TTATTATTACTA
1 TTATTATTACTA
7432929 TTATT
1 TTATT
7432934 TAACCATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:7433144 original size:20 final size:20
Alignment explanation
Indices: 7433119--7433161 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
7433109 TTATTTTATA
7433119 AATTATATATTAATTGTTTT
1 AATTATATATTAATTGTTTT
* * *
7433139 AATTATTTATTTATTTTTTT
1 AATTATATATTAATTGTTTT
7433159 AAT
1 AAT
7433162 ATCAAAGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
AATTATATATTAATTGTTTT
Found at i:7433155 original size:119 final size:118
Alignment explanation
Indices: 7433017--7433252 Score: 271
Period size: 121 Copynumber: 2.0 Consensus size: 118
7433007 TTTAATCCTA
* * * * *
7433017 TTTTAATATTTATTTA-TTTTCCAATAT-TAAG-AAAGGGCAATCTTAAAATAACTGGATGTTCA
1 TTTTAATATTTATTTATTTTTCCAATATCAAAGAAAAGAGCAATCTTAAAACAACTAGAAG-TCA
* *
7433079 TTTTCTGATATTTTTAAATAAATAAATATCTTATTTTATAAATTATATATTAATTG
65 TTTTCTGATATTTCTAAATAAATAAATATCTTA-TTTATAAA-TATATATAAATTG
** ** ** * *
7433135 TTTTAATTATTTATTTATTTTTTTAATATCAAAGAAAAGAGCTGTCTTAATGCACCTAGAAGTCC
1 TTTTAA-TATTTATTTATTTTTCCAATATCAAAGAAAAGAGCAATCTTAAAACAACTAGAAGTCA
*
7433200 TTTTCTGATATTTCTAAATAAATAAATATTTTATTTATAAATATATATAAATT
65 TTTTCTGATATTTCTAAATAAATAAATATCTTATTTATAAATATATATAAATT
7433253 AATATATATT
Statistics
Matches: 98, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
118 6 0.06
119 21 0.21
120 17 0.17
121 36 0.37
122 18 0.18
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.47
Consensus pattern (118 bp):
TTTTAATATTTATTTATTTTTCCAATATCAAAGAAAAGAGCAATCTTAAAACAACTAGAAGTCAT
TTTCTGATATTTCTAAATAAATAAATATCTTATTTATAAATATATATAAATTG
Found at i:7441704 original size:44 final size:44
Alignment explanation
Indices: 7441638--7441761 Score: 172
Period size: 44 Copynumber: 3.0 Consensus size: 44
7441628 CTGTCAACAC
* *
7441638 ACATTTTCGTCATACTAAGATTCAAACTTCTAAAAATAGGATAT
1 ACATTTTCGTCATACTAGGATTCAAACTCCTAAAAATAGGATAT
7441682 ACATTTTCGTCATACTAGGATTCAAACTCCTAAAAATAGGATAT
1 ACATTTTCGTCATACTAGGATTCAAACTCCTAAAAATAGGATAT
*
7441726 A-A--TT--T--TACTAGGATTCAAACTCCTAAAAATATGATA
1 ACATTTTCGTCATACTAGGATTCAAACTCCTAAAAATAGGATA
7441762 GAGTTCTACT
Statistics
Matches: 77, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
37 30 0.39
39 1 0.01
41 2 0.03
43 1 0.01
44 43 0.56
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (44 bp):
ACATTTTCGTCATACTAGGATTCAAACTCCTAAAAATAGGATAT
Found at i:7441744 original size:37 final size:37
Alignment explanation
Indices: 7441694--7441797 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 37
7441684 ATTTTCGTCA
* *
7441694 TACTAGGATTCAAACTCCTAAAAATAGGATATAATTT
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTC
* *
7441731 TACTAGGATTCAAACTCCTAAAAATATGATAGAGTTC
1 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTC
** * *
7441768 TACTATTATTTAAACTCCTAAAGATAGGAT
1 TACTAGGATTCAAACTCCTAAAAATAGGAT
7441798 CCACAAGTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTC
Found at i:7442237 original size:15 final size:14
Alignment explanation
Indices: 7442217--7442263 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
7442207 TATATATATA
7442217 TATTTAATTATATTT
1 TATTTAATT-TATTT
7442232 TATTT-ATTTA-TT
1 TATTTAATTTATTT
*
7442244 TATTATAATTTTTTT
1 TATT-TAATTTATTT
7442259 TATTT
1 TATTT
7442264 TTCTTTGCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 6 0.21
13 3 0.11
14 8 0.29
15 11 0.39
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TATTTAATTTATTT
Found at i:7442245 original size:23 final size:23
Alignment explanation
Indices: 7442217--7442263 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
7442207 TATATATATA
7442217 TATTTAATTAT-ATTTTATTTATT
1 TATTT-ATTATAATTTTATTTATT
*
7442240 TATTTATTATAATTTTTTTTATT
1 TATTTATTATAATTTTATTTATT
7442263 T
1 T
7442264 TTCTTTGCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (23 bp):
TATTTATTATAATTTTATTTATT
Found at i:7442302 original size:2 final size:2
Alignment explanation
Indices: 7442295--7442327 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7442285 ATTTTCTTAT
7442295 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 T
7442328 TTTTTATCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7442365 original size:12 final size:12
Alignment explanation
Indices: 7442348--7442372 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7442338 TGTTTACTTA
7442348 TTTACTATATTT
1 TTTACTATATTT
7442360 TTTACTATATTT
1 TTTACTATATTT
7442372 T
1 T
7442373 CCTAACGTTA
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:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTACTATATTT
Found at i:7443903 original size:19 final size:19
Alignment explanation
Indices: 7443879--7443915 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
7443869 ACCTTACTAA
7443879 CTCTTTTCATTTT-TTTCCT
1 CTCTTTT-ATTTTATTTCCT
7443898 CTCTTTTATTTTATTTCC
1 CTCTTTTATTTTATTTCC
7443916 ATCATCTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (19 bp):
CTCTTTTATTTTATTTCCT
Found at i:7445926 original size:14 final size:15
Alignment explanation
Indices: 7445873--7445927 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
7445863 AAAGGGCAAA
7445873 AACAAAAAAGAAAAG
1 AACAAAAAAGAAAAG
7445888 AAGCAAAAAAGAAGAA-
1 AA-CAAAAAAGAA-AAG
* *
7445904 AATAAAAAAAAGAAAG
1 AACAAAAAAGA-AAAG
7445920 AACAAAAA
1 AACAAAAA
7445928 TCAAAAAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 11 0.33
16 20 0.61
17 2 0.06
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.02
Consensus pattern (15 bp):
AACAAAAAAGAAAAG
Found at i:7447664 original size:106 final size:106
Alignment explanation
Indices: 7447539--7448272 Score: 1089
Period size: 106 Copynumber: 7.0 Consensus size: 106
7447529 ATATCGTGCC
* * * **
7447539 ACTCGAGACAACACAAGTTCAACTTCACAACGAATGGATGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
7447604 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
7447645 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAAGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
7447710 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
7447751 ACTCGAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
7447816 AATTTCGGAGCCAATTTCAACTTCACAACGAAAGTTATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * **
7447857 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTTAACAAACAACTTCTT
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
7447922 AATTTCAGAGCCAATTTCAACTTCACAACGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
7447963 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
7448028 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
7448069 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAAC--A-AA-----C
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
7448126 AATTTC----CCAATTTCAACTTCACAACAAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
7448163 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCC
1 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCC
** * * * *
7448227 TGATTCCAGAGCCAATTTTAACTTCACGACGGAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
7448269 ACTC
1 ACTC
7448273 AGAACAATGC
Statistics
Matches: 573, Mismatches: 42, Indels: 26
0.89 0.07 0.04
Matches are distributed among these distances:
93 2 0.00
94 76 0.13
96 1 0.00
97 2 0.00
98 7 0.01
102 4 0.01
103 2 0.00
104 1 0.00
106 478 0.83
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:7448104 original size:43 final size:43
Alignment explanation
Indices: 7448043--7448198 Score: 132
Period size: 43 Copynumber: 3.4 Consensus size: 43
7448033 CAGAGCCAAT
* *
7448043 TTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACGCAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAG
* ** ** * * * *
7448086 TTCAACTTCACGACGAAGGGACCGTTGGTTGTCAACAAACAATTTCCCAAT
1 TTCAACTTCACAACGAA-GGA-TATTGG-ACTC--GAGACAA---CACAAG
*
7448137 TTCAACTTCACAACAAAGGATATTGGACTCGAGACAACACAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAG
7448180 TTCAACTTCACAACGAAGG
1 TTCAACTTCACAACGAAGG
7448199 GACGACTGGT
Statistics
Matches: 84, Mismatches: 21, Indels: 16
0.69 0.17 0.13
Matches are distributed among these distances:
43 37 0.44
44 3 0.04
45 4 0.05
46 7 0.08
48 7 0.08
49 4 0.05
50 3 0.04
51 19 0.23
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (43 bp):
TTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAG
Found at i:7449112 original size:37 final size:37
Alignment explanation
Indices: 7449022--7449118 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
7449012 CATTTTCGTC
*
7449022 ATACTAGGATTCAAACTCCTAAAAATAGGATATAATT
1 ATACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
7449059 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 ATACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** *
7449096 ATACTATTATTTAAACTCCTAAA
1 ATACTAGGATTCAAACTCCTAAA
7449119 GATATGATCC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.32
Consensus pattern (37 bp):
ATACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:7449565 original size:15 final size:14
Alignment explanation
Indices: 7449545--7449590 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
7449535 TATATATATA
7449545 TATTTAATTATATTT
1 TATTTAATT-TATTT
7449560 TATTT-ATTTA-TT
1 TATTTAATTTATTT
7449572 TATTATAATTT-TTT
1 TATT-TAATTTATTT
7449586 TATTT
1 TATTT
7449591 TTCTTTGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 6 0.21
13 4 0.14
14 13 0.46
15 5 0.18
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TATTTAATTTATTT
Found at i:7449576 original size:22 final size:23
Alignment explanation
Indices: 7449545--7449590 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
7449535 TATATATATA
7449545 TATTTAATTAT-ATTTTATTTATT
1 TATTTAATTATAATTTT-TTTATT
7449568 TATTT-ATTATAATTTTTTTATT
1 TATTTAATTATAATTTTTTTATT
7449590 T
1 T
7449591 TTCTTTGAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (23 bp):
TATTTAATTATAATTTTTTTATT
Found at i:7449622 original size:33 final size:31
Alignment explanation
Indices: 7449572--7449653 Score: 85
Period size: 33 Copynumber: 2.6 Consensus size: 31
7449562 TTTATTTATT
* * * *
7449572 TATTATAAT-TTTTTTATTTTTCTTTGAGATA
1 TATTATATTATTTTTTATTATTATAT-AGATA
*
7449603 TATTATATTATTTTCTTATTATTATATATATA
1 TATTATATTATTTT-TTATTATTATATAGATA
7449635 TATATATATTATTTTTTAT
1 TAT-TATATTATTTTTTAT
7449654 CTATGTTTAC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
31 8 0.19
32 15 0.35
33 20 0.47
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (31 bp):
TATTATATTATTTTTTATTATTATATAGATA
Found at i:7449685 original size:13 final size:13
Alignment explanation
Indices: 7449667--7449692 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7449657 TGTTTACTTA
7449667 TTTACTATATTTT
1 TTTACTATATTTT
7449680 TTTACTATATTTT
1 TTTACTATATTTT
7449693 CCTAACGTTA
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:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTACTATATTTT
Found at i:7449857 original size:22 final size:20
Alignment explanation
Indices: 7449832--7449877 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
7449822 TATTATAATA
7449832 TTATACATACATTTTTATATTT
1 TTATACATA-ATTTTTAT-TTT
* *
7449854 TTATATATATTTTTTATTTT
1 TTATACATAATTTTTATTTT
7449874 TTAT
1 TTAT
7449878 TTTATTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 7 0.32
22 8 0.36
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATACATAATTTTTATTTT
Found at i:7449885 original size:29 final size:28
Alignment explanation
Indices: 7449843--7449902 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
7449833 TATACATACA
*
7449843 TTTTTATATTTTTATA-TATATTTTTTAT
1 TTTTTATATTTTTATACTAT-TTATTTAT
*
7449871 TTTTTATTTTATTTATACTATTTATTTAT
1 TTTTTATATT-TTTATACTATTTATTTAT
7449900 TTT
1 TTT
7449903 CATTATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 9 0.32
29 16 0.57
30 3 0.11
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (28 bp):
TTTTTATATTTTTATACTATTTATTTAT
Found at i:7449887 original size:25 final size:27
Alignment explanation
Indices: 7449842--7449897 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
7449832 TTATACATAC
* *
7449842 ATTTTTATATTTTTATATATATTTTTT
1 ATTTTTATATTTTTATATATACTATTT
*
7449869 ATTTTT-TA-TTTTATTTATACTATTT
1 ATTTTTATATTTTTATATATACTATTT
7449894 ATTT
1 ATTT
7449898 ATTTTCATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 18 0.69
26 2 0.08
27 6 0.23
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (27 bp):
ATTTTTATATTTTTATATATACTATTT
Found at i:7449892 original size:28 final size:28
Alignment explanation
Indices: 7449842--7449902 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 28
7449832 TTATACATAC
7449842 ATTTTTATATTTTTATATATATTT-TTT
1 ATTTTTATATTTTTATATATATTTATTT
*
7449869 ATTTTT-TATTTTATTTATACTATTTATTT
1 ATTTTTATATTTT-TATATA-TATTTATTT
7449898 ATTTT
1 ATTTT
7449903 CATTATGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 6 0.20
27 11 0.37
28 5 0.17
29 8 0.27
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (28 bp):
ATTTTTATATTTTTATATATATTTATTT
Found at i:7464889 original size:15 final size:15
Alignment explanation
Indices: 7464866--7464895 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7464856 TATTTACTCT
*
7464866 AATAGATGAAAAGAA
1 AATACATGAAAAGAA
7464881 AATACATGAAAAGAA
1 AATACATGAAAAGAA
7464896 GCTCAAATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.17, T:0.13
Consensus pattern (15 bp):
AATACATGAAAAGAA
Found at i:7468332 original size:19 final size:19
Alignment explanation
Indices: 7468308--7468347 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
7468298 AGGACAAGTG
7468308 CAAAAGCATAAT-TCTTTGC
1 CAAAAGCATAATAT-TTTGC
7468327 CAAAAGCATAATATTTTGC
1 CAAAAGCATAATATTTTGC
7468346 CA
1 CA
7468348 CTGTAACACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (19 bp):
CAAAAGCATAATATTTTGC
Found at i:7469434 original size:18 final size:20
Alignment explanation
Indices: 7469389--7469438 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
7469379 CCCCTATTGG
7469389 GAGTATCGATACTACCCTCTT
1 GAGTATCGATACTACCCTC-T
*
7469410 G-GTATCGATACT-CGCTC-
1 GAGTATCGATACTACCCTCT
7469427 GAGTATCGATAC
1 GAGTATCGATAC
7469439 CAAAATTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 1 0.04
18 10 0.37
19 4 0.15
20 11 0.41
21 1 0.04
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (20 bp):
GAGTATCGATACTACCCTCT
Found at i:7475834 original size:23 final size:23
Alignment explanation
Indices: 7475808--7475858 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
7475798 AATCTATAGT
* *
7475808 AGCATAAGAATTTCATCAACACA
1 AGCATAAAAATTTCATAAACACA
*
7475831 AGCATAAAAATTTCTTAAACACA
1 AGCATAAAAATTTCATAAACACA
7475854 AGCAT
1 AGCAT
7475859 GCTTAAGGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.49, C:0.20, G:0.08, T:0.24
Consensus pattern (23 bp):
AGCATAAAAATTTCATAAACACA
Found at i:7481470 original size:30 final size:31
Alignment explanation
Indices: 7481428--7481518 Score: 121
Period size: 30 Copynumber: 2.9 Consensus size: 31
7481418 GACCAGATAC
7481428 TAGTCAGGGTACATTCAGATAATGCACATTA
1 TAGTCAGGGTACATTCAGATAATGCACATTA
* *
7481459 TGGTCA-GGTACATTCAGATATTGCACATTA
1 TAGTCAGGGTACATTCAGATAATGCACATTA
** *
7481489 TAGTCATGTTTGCATTCAGATAATGCACAT
1 TAGTCA-GGGTACATTCAGATAATGCACAT
7481519 ATAATGCACA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
30 28 0.55
31 5 0.10
32 18 0.35
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (31 bp):
TAGTCAGGGTACATTCAGATAATGCACATTA
Found at i:7483838 original size:19 final size:19
Alignment explanation
Indices: 7483814--7483864 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
7483804 AATATTATAT
7483814 TATTATTCAGCTGTTAAAG
1 TATTATTCAGCTGTTAAAG
7483833 TATTATTCAGCTGTTAAAG
1 TATTATTCAGCTGTTAAAG
7483852 TATTATTC-GCTGT
1 TATTATTCAGCTGT
7483865 ATTCCTAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 5 0.16
19 27 0.84
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (19 bp):
TATTATTCAGCTGTTAAAG
Found at i:7487618 original size:18 final size:19
Alignment explanation
Indices: 7487576--7487615 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
7487566 TTTGGTTCAA
7487576 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAG-G
*
7487596 GGAATGTAAGATTATCAGG
1 GGAATGTAAGATTACCAGG
7487615 G
1 G
7487616 AATAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.35, C:0.07, G:0.33, T:0.25
Consensus pattern (19 bp):
GGAATGTAAGATTACCAGG
Found at i:7490469 original size:93 final size:93
Alignment explanation
Indices: 7490172--7490458 Score: 378
Period size: 93 Copynumber: 3.2 Consensus size: 93
7490162 GAATTGGTCT
* ** * * *
7490172 GGAACCAGTGGGAGAAAACAAAGCTGATGTGAAACATTTGTTCGTTGCTTCTGATTCAAGCTACA
1 GGAACCAGTGGGAGAAAACAAGGCTGATAAGAAATATTTGTCCATTGCTTCTGATTCAAGCTACA
* *
7490237 AG---G---AT--T-CCGAAAAGGGTTC
66 AGCCTGACAATGATACCGAAAAGAGTCC
*
7490256 GGAA-CAGGTGGGAGAAAACAAGGCTGATAAGAAATATTTTTCCATTGCTTCTGATTCAAGCTAC
1 GGAACCA-GTGGGAGAAAACAAGGCTGATAAGAAATATTTGTCCATTGCTTCTGATTCAAGCTAC
*
7490320 AAGCCTGACAATGATCCCGAAAAGAGTCC
65 AAGCCTGACAATGATACCGAAAAGAGTCC
* *
7490349 GGAACCGGTGGGAGAAAACAAGGCTGATAAGAAATATTTGTCCGTTGCTTCTGATTCAAGCTACA
1 GGAACCAGTGGGAGAAAACAAGGCTGATAAGAAATATTTGTCCATTGCTTCTGATTCAAGCTACA
*
7490414 AGCCTGACAGTGATACCGAAAAGAGTCC
66 AGCCTGACAATGATACCGAAAAGAGTCC
7490442 GGAACCAGTGGGAGAAA
1 GGAACCAGTGGGAGAAA
7490459 TTCATTCTGA
Statistics
Matches: 177, Mismatches: 15, Indels: 13
0.86 0.07 0.06
Matches are distributed among these distances:
83 2 0.01
84 57 0.32
87 1 0.01
90 2 0.01
92 1 0.01
93 113 0.64
94 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (93 bp):
GGAACCAGTGGGAGAAAACAAGGCTGATAAGAAATATTTGTCCATTGCTTCTGATTCAAGCTACA
AGCCTGACAATGATACCGAAAAGAGTCC
Found at i:7490592 original size:157 final size:159
Alignment explanation
Indices: 7490304--7490615 Score: 434
Period size: 157 Copynumber: 2.0 Consensus size: 159
7490294 TTTCCATTGC
*
7490304 TTCTGATTCAAGCTACAAGCCTGACAATGATCCCGAAAAGAGTCCGGAACCGGTGGGAGAAAACA
1 TTCTGATTCAAGCCACAAGCCTGACAATGATCCCGAAAAGAGTCCGGAACCGGTGGGAGAAAACA
* *
7490369 AGGCTGATAAGAAATATTTGTCCGTTGCTTCTGATTCAAGCTACAAGCCTGACAGTGATACCGAA
66 AAGCTGATAAGAAACATTTGTCCGTTGCTTCTGATTCAAGCTACAAGCCTGACAGTGATACCGAA
7490434 AAGAGTCCGGAACCAGTGGGAGAAATTCA
131 AAGAGTCCGGAACCAGTGGGAGAAATTCA
* * * * *
7490463 TTCTGATTCAAGCCACAAGCTTGACATTGATTCC-AAACAGGGTCAGGGAA-CGGTGGGA-AAAA
1 TTCTGATTCAAGCCACAAGCCTGACAATGATCCCGAAA-AGAGTC-CGGAACCGGTGGGAGAAAA
* * ** *
7490525 CAAAGCTGATAATAAACA-TTGTCCGTTGCTTCTGATTCAAGCTACAAGCTTGATGGTGATTCCG
64 CAAAGCTGATAAGAAACATTTGTCCGTTGCTTCTGATTCAAGCTACAAGCCTGACAGTGATACCG
* * *
7490589 AAAAGGGTCTGGAACCGGTGGGAGAAA
129 AAAAGAGTCCGGAACCAGTGGGAGAAA
7490616 ACAAAGATTA
Statistics
Matches: 135, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
157 66 0.49
158 22 0.16
159 43 0.32
160 4 0.03
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (159 bp):
TTCTGATTCAAGCCACAAGCCTGACAATGATCCCGAAAAGAGTCCGGAACCGGTGGGAGAAAACA
AAGCTGATAAGAAACATTTGTCCGTTGCTTCTGATTCAAGCTACAAGCCTGACAGTGATACCGAA
AAGAGTCCGGAACCAGTGGGAGAAATTCA
Found at i:7502798 original size:29 final size:27
Alignment explanation
Indices: 7502746--7502801 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 27
7502736 AATTATCGCG
7502746 TTGCGATTTTACTATCGCAATGCGATA
1 TTGCGATTTTACTATCGCAATGCGATA
* *
7502773 TTGCGATTTTATATTATCGCATTGCGATA
1 TTGCGA-TTT-TACTATCGCAATGCGATA
7502802 GTTCAAGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.24
28 3 0.12
29 16 0.64
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (27 bp):
TTGCGATTTTACTATCGCAATGCGATA
Found at i:7503248 original size:19 final size:20
Alignment explanation
Indices: 7503216--7503258 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
7503206 ACAACACGTT
*
7503216 TTTTAAACTCTCGCAACACA
1 TTTTAAACTATCGCAACACA
7503236 TTTT-AACTATCGCAACACA
1 TTTTAAACTATCGCAACACA
7503255 TTTT
1 TTTT
7503259 TCAATATCGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.37
Consensus pattern (20 bp):
TTTTAAACTATCGCAACACA
Found at i:7507614 original size:31 final size:31
Alignment explanation
Indices: 7507576--7507636 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
7507566 GTTAGTGACT
*
7507576 ATATTGCAAACGGACTAAATATTGAGGGATC
1 ATATTGCAAACAGACTAAATATTGAGGGATC
* * *
7507607 ATATTGCAAATAGACTAAATGTTGGGGGAT
1 ATATTGCAAACAGACTAAATATTGAGGGAT
7507637 TATTCCTAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.28
Consensus pattern (31 bp):
ATATTGCAAACAGACTAAATATTGAGGGATC
Found at i:7510534 original size:20 final size:20
Alignment explanation
Indices: 7510505--7510543 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7510495 AGAGCTCATA
*
7510505 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
7510525 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
7510544 GTGGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:7519038 original size:20 final size:20
Alignment explanation
Indices: 7519009--7519047 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7518999 AGAGCTCATA
*
7519009 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
7519029 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
7519048 GTGGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:7520834 original size:12 final size:12
Alignment explanation
Indices: 7520817--7520927 Score: 87
Period size: 12 Copynumber: 9.2 Consensus size: 12
7520807 TAACTACCGC
7520817 TGAGGGTGCTGG
1 TGAGGGTGCTGG
7520829 TGAGGGTGCTGG
1 TGAGGGTGCTGG
* *
7520841 TGTGGGTGTTGG
1 TGAGGGTGCTGG
*
7520853 TGAGGGTACTGG
1 TGAGGGTGCTGG
* *
7520865 TTAGGGTGCTGA
1 TGAGGGTGCTGG
* * *
7520877 TGAGTGTGATGC
1 TGAGGGTGCTGG
** ** *
7520889 TGATTGTATTGC
1 TGAGGGTGCTGG
7520901 TGAGGGTGCTGG
1 TGAGGGTGCTGG
* *
7520913 AGAGGGTGTTGG
1 TGAGGGTGCTGG
7520925 TGA
1 TGA
7520928 TTGTGATGCT
Statistics
Matches: 76, Mismatches: 23, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 76 1.00
ACGTcount: A:0.13, C:0.06, G:0.50, T:0.32
Consensus pattern (12 bp):
TGAGGGTGCTGG
Found at i:7520865 original size:36 final size:36
Alignment explanation
Indices: 7520817--7520927 Score: 114
Period size: 36 Copynumber: 3.1 Consensus size: 36
7520807 TAACTACCGC
* *
7520817 TGAGGGTGCTGGTGAGGGTGCTGGTGTGGGTGTTGG
1 TGAGGGTACTGGTGAGGGTGCTGGTGAGGGTGTTGG
* * * * *
7520853 TGAGGGTACTGGTTAGGGTGCTGATGAGTGTGATGC
1 TGAGGGTACTGGTGAGGGTGCTGGTGAGGGTGTTGG
** * * *
7520889 TGATTGTATTGCTGAGGGTGCTGGAGAGGGTGTTGG
1 TGAGGGTACTGGTGAGGGTGCTGGTGAGGGTGTTGG
7520925 TGA
1 TGA
7520928 TTGTGATGCT
Statistics
Matches: 58, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
36 58 1.00
ACGTcount: A:0.13, C:0.06, G:0.50, T:0.32
Consensus pattern (36 bp):
TGAGGGTACTGGTGAGGGTGCTGGTGAGGGTGTTGG
Found at i:7520929 original size:36 final size:35
Alignment explanation
Indices: 7520829--7520940 Score: 100
Period size: 36 Copynumber: 3.1 Consensus size: 35
7520819 AGGGTGCTGG
* * ** *
7520829 TGAGGGTGCTGGTGTGGGTGTTGGTGAGGGTACTGG
1 TGAGGGTGCTGGAGAGGGTGTTGGTGATTGTA-TGC
* * * *
7520865 TTAGGGTGCT-GATGAGTGTGATGCTGATTGTATTGC
1 TGAGGGTGCTGGA-GAGGGTGTTGGTGATTGTA-TGC
7520901 TGAGGGTGCTGGAGAGGGTGTTGGTGATTGTGATGC
1 TGAGGGTGCTGGAGAGGGTGTTGGTGATTGT-ATGC
7520937 TGAG
1 TGAG
7520941 AGGGTTGCTG
Statistics
Matches: 59, Mismatches: 14, Indels: 6
0.75 0.18 0.08
Matches are distributed among these distances:
35 1 0.02
36 55 0.93
37 3 0.05
ACGTcount: A:0.13, C:0.06, G:0.47, T:0.33
Consensus pattern (35 bp):
TGAGGGTGCTGGAGAGGGTGTTGGTGATTGTATGC
Found at i:7520984 original size:75 final size:77
Alignment explanation
Indices: 7520901--7521056 Score: 199
Period size: 75 Copynumber: 2.0 Consensus size: 77
7520891 ATTGTATTGC
* ** * * *
7520901 TGAGGGTGCTGGAGAGGGTGTTGGTGATTGTGATGCTGAGAGGGTTGCTGAAAATGTAGTTG-T-
1 TGAGGGTGCTGGAGAGGGTGCTACTAATTGTGATACTGAGAGGGTTGCTAAAAATGTAGTTGATC
*
7520964 TGCTGGTCTTGA
66 TACTGGTCTTGA
* * *
7520976 TGAGGGTGCTGGTGAGGGTGCTACTAATTGTGCTACTGAGAGGGTTGCTAAAAATTTAGTTGATG
1 TGAGGGTGCTGGAGAGGGTGCTACTAATTGTGATACTGAGAGGGTTGCTAAAAATGTAGTTGAT-
7521041 CTACTGGTCTTGA
65 CTACTGGTCTTGA
7521054 TGA
1 TGA
7521057 TATTGGAGAT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
75 53 0.78
76 1 0.01
78 14 0.21
ACGTcount: A:0.20, C:0.09, G:0.38, T:0.33
Consensus pattern (77 bp):
TGAGGGTGCTGGAGAGGGTGCTACTAATTGTGATACTGAGAGGGTTGCTAAAAATGTAGTTGATC
TACTGGTCTTGA
Found at i:7536252 original size:205 final size:200
Alignment explanation
Indices: 7535905--7536306 Score: 723
Period size: 205 Copynumber: 2.0 Consensus size: 200
7535895 AGCTTCTTGA
*
7535905 GATCAATCCTGAATCTTACACTGCTTGGAACTATATAAAACTCGCTGTTGAGCTTTGTCTGAGTC
1 GATCAATCCTGAATCTTACACTGATTGGAACTATATAAAACTCGCTGTTGAGCTTTGTCTGAGTC
*
7535970 AGCCCGCGTCTAACTCTGAATCGGTCAAGTCCATTCTCGATGAGGAACTCAGAGTGGTACGCCCG
66 AGCCCGAGTCTAACTCTGAATCGGTCAAGTCCATTCTCGATGAGGAACTCAGAGTGGTACGCCCG
7536035 CGAAGATTTGATTTTTACTACACTAATTTTTGTTCACTTAATATGATTTTGTCCAATTTCATTTT
131 CGAAGATTTGATTTTTACTACACTAATTTTTGTTCACTTAATATGATTTTGTCCAATTTCATTTT
7536100 AAGGG
196 AAGGG
7536105 GATCAATCCTGAATCTTACACCGCTTGGATTGGAACTATATAAAACTCGCTGTTGAGCTTTGTCT
1 GATCAATCCTGAATCTTACA---C-T-GATTGGAACTATATAAAACTCGCTGTTGAGCTTTGTCT
* *
7536170 GAGTCAGCCCGAGTCTAACTCTGACTCGGTCAAGTCCATTCTCGATGAGGAACTCAGAGTGGTGC
61 GAGTCAGCCCGAGTCTAACTCTGAATCGGTCAAGTCCATTCTCGATGAGGAACTCAGAGTGGTAC
7536235 GCCCGCGAAGATTTGATTTTTACTACACTAATTTTTGTTCACTTAATATGATTTTGTCCAATTTC
126 GCCCGCGAAGATTTGATTTTTACTACACTAATTTTTGTTCACTTAATATGATTTTGTCCAATTTC
7536300 ATTTTAA
191 ATTTTAA
7536307 AGGCATCGGT
Statistics
Matches: 193, Mismatches: 4, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
200 20 0.10
203 1 0.01
204 1 0.01
205 171 0.89
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (200 bp):
GATCAATCCTGAATCTTACACTGATTGGAACTATATAAAACTCGCTGTTGAGCTTTGTCTGAGTC
AGCCCGAGTCTAACTCTGAATCGGTCAAGTCCATTCTCGATGAGGAACTCAGAGTGGTACGCCCG
CGAAGATTTGATTTTTACTACACTAATTTTTGTTCACTTAATATGATTTTGTCCAATTTCATTTT
AAGGG
Found at i:7550620 original size:21 final size:21
Alignment explanation
Indices: 7550594--7550657 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
7550584 TTTCTGGGCT
7550594 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCATTCA
*
7550615 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCATTCA
* *
7550636 AGGGGAACCGATACCCCTTCA
1 AGGGGAATCGATACCCATTCA
7550657 A
1 A
7550658 ACGAACAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.31, C:0.27, G:0.25, T:0.17
Consensus pattern (21 bp):
AGGGGAATCGATACCCATTCA
Found at i:7554910 original size:6 final size:6
Alignment explanation
Indices: 7554899--7554924 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
7554889 GACACGTATT
7554899 ACCACG ACCACG ACCACG ACCACG AC
1 ACCACG ACCACG ACCACG ACCACG AC
7554925 GGGATGAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.50, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:7556171 original size:19 final size:19
Alignment explanation
Indices: 7556149--7556195 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
7556139 GTTAATTTTA
7556149 TTAAAAATAAAAAAATAAG
1 TTAAAAATAAAAAAATAAG
** * *
7556168 TTAAAAATTTATAATTAAG
1 TTAAAAATAAAAAAATAAG
7556187 TTAAAAATA
1 TTAAAAATA
7556196 TAATAAAGAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (19 bp):
TTAAAAATAAAAAAATAAG
Found at i:7556199 original size:17 final size:18
Alignment explanation
Indices: 7556164--7556199 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
7556154 AATAAAAAAA
7556164 TAAGTTAAAAATTTATAAT
1 TAAGTTAAAAA-TTATAAT
7556183 TAAGTTAAAAA-TATAAT
1 TAAGTTAAAAATTATAAT
7556200 AAAGATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
19 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (18 bp):
TAAGTTAAAAATTATAAT
Found at i:7557390 original size:19 final size:20
Alignment explanation
Indices: 7557366--7557409 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
7557356 GGTATTTTTG
* *
7557366 GTATCGATACTC-AGGGTGA
1 GTATCGATACCCAAGGGTCA
7557385 GTATCGATACCCAAGGGTCA
1 GTATCGATACCCAAGGGTCA
7557405 GTATC
1 GTATC
7557410 AATATTATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (20 bp):
GTATCGATACCCAAGGGTCA
Found at i:7558686 original size:23 final size:22
Alignment explanation
Indices: 7558660--7558724 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 22
7558650 ACGGTTGAAG
*
7558660 ACGTATCATAAACACAG-AGAAAA
1 ACGTGTCATAAA-ACAGAAG-AAA
7558683 ACGTGTCATAAAAGCAGAAGAAA
1 ACGTGTCATAAAA-CAGAAGAAA
7558706 ACGTGTCATAAAGACAGAA
1 ACGTGTCATAAA-ACAGAA
7558725 TTATTAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
22 1 0.03
23 34 0.89
24 3 0.08
ACGTcount: A:0.52, C:0.15, G:0.18, T:0.14
Consensus pattern (22 bp):
ACGTGTCATAAAACAGAAGAAA
Found at i:7560559 original size:19 final size:19
Alignment explanation
Indices: 7560535--7560576 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
7560525 GCGATTTGTG
*
7560535 ATTTAAGGTTTGTGGTATA
1 ATTTAAGGTTTATGGTATA
7560554 ATTTAAGGTTTATGGTATA
1 ATTTAAGGTTTATGGTATA
7560573 ATTT
1 ATTT
7560577 TTGGGTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (19 bp):
ATTTAAGGTTTATGGTATA
Found at i:7561616 original size:28 final size:28
Alignment explanation
Indices: 7561584--7561679 Score: 122
Period size: 28 Copynumber: 3.5 Consensus size: 28
7561574 ATTTCTAATA
* *
7561584 TCTGTATGGGATTTATTCCCTAATCTAT
1 TCTGTATGGGATTTGTTCCCTGATCTAT
*
7561612 TCTGTATGAGATTTGTT-CCTGATCTAT
1 TCTGTATGGGATTTGTTCCCTGATCTAT
* * *
7561639 TCTATATGTGATTTGTTCCCTGATCTGT
1 TCTGTATGGGATTTGTTCCCTGATCTAT
*
7561667 TTTGTATGGGATT
1 TCTGTATGGGATT
7561680 ATATCCCGTT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 24 0.41
28 34 0.59
ACGTcount: A:0.18, C:0.15, G:0.19, T:0.49
Consensus pattern (28 bp):
TCTGTATGGGATTTGTTCCCTGATCTAT
Found at i:7561646 original size:27 final size:28
Alignment explanation
Indices: 7561588--7561664 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
7561578 CTAATATCTG
* * * *
7561588 TATGGGATTTATTCCCTAATCTATTCTG
1 TATGAGATTTGTTCCCTGATCTATTCTA
7561616 TATGAGATTTGTT-CCTGATCTATTCTA
1 TATGAGATTTGTTCCCTGATCTATTCTA
*
7561643 TATGTGATTTGTTCCCTGATCT
1 TATGAGATTTGTTCCCTGATCT
7561665 GTTTTGTATG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 24 0.56
28 19 0.44
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.48
Consensus pattern (28 bp):
TATGAGATTTGTTCCCTGATCTATTCTA
Found at i:7567191 original size:18 final size:17
Alignment explanation
Indices: 7567168--7567211 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
7567158 AGTGTTGGAA
7567168 AATTTAAAATTATTATAT
1 AATTTAAAATTATTA-AT
*
7567186 AATTT-AAATTTTTAAT
1 AATTTAAAATTATTAAT
*
7567202 AATTAAAAAT
1 AATTTAAAAT
7567212 ATATGGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 6 0.26
17 12 0.52
18 5 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTTAAAATTATTAAT
Found at i:7578380 original size:77 final size:77
Alignment explanation
Indices: 7578250--7578402 Score: 281
Period size: 77 Copynumber: 2.0 Consensus size: 77
7578240 TCAATCAGCA
*
7578250 GGTTAACGTACAACTCAAACTCTCATCAATTTTTTAACGAAAAATGACGAGTTTGGAACATAATA
1 GGTTAACGTACAACTCAAACTCTCATCAATTTTTTAACGAAAAATGACAAGTTTGGAACATAATA
7578315 AATAGTCAAGTT
66 AATAGTCAAGTT
7578327 GGTTAACGTACAACTCAAACTCTCATCAATTTTTTAACGGAAAAA-GACAAGTTTGGAACATAAT
1 GGTTAACGTACAACTCAAACTCTCATCAATTTTTTAAC-GAAAAATGACAAGTTTGGAACATAAT
7578391 AAATAGTCAAGT
65 AAATAGTCAAGT
7578403 GACCATTTAT
Statistics
Matches: 74, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
77 68 0.92
78 6 0.08
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (77 bp):
GGTTAACGTACAACTCAAACTCTCATCAATTTTTTAACGAAAAATGACAAGTTTGGAACATAATA
AATAGTCAAGTT
Found at i:7578602 original size:6 final size:6
Alignment explanation
Indices: 7578583--7578640 Score: 89
Period size: 6 Copynumber: 9.7 Consensus size: 6
7578573 AAGATTAGAA
** *
7578583 GGGGTG GGAATG GGGGTG GGGGTG GGGGTG GGGGTG GGGGTG GGAGTG
1 GGGGTG GGGGTG GGGGTG GGGGTG GGGGTG GGGGTG GGGGTG GGGGTG
7578631 GGGGTG GGGG
1 GGGGTG GGGG
7578641 AGAGAAGTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.05, C:0.00, G:0.79, T:0.16
Consensus pattern (6 bp):
GGGGTG
Found at i:7578606 original size:18 final size:18
Alignment explanation
Indices: 7578583--7578640 Score: 98
Period size: 18 Copynumber: 3.2 Consensus size: 18
7578573 AAGATTAGAA
*
7578583 GGGGTGGGAATGGGGGTG
1 GGGGTGGGAGTGGGGGTG
*
7578601 GGGGTGGGGGTGGGGGTG
1 GGGGTGGGAGTGGGGGTG
7578619 GGGGTGGGAGTGGGGGTG
1 GGGGTGGGAGTGGGGGTG
7578637 GGGG
1 GGGG
7578641 AGAGAAGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.05, C:0.00, G:0.79, T:0.16
Consensus pattern (18 bp):
GGGGTGGGAGTGGGGGTG
Found at i:7586069 original size:19 final size:19
Alignment explanation
Indices: 7586045--7586081 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7586035 GTCAACTATG
*
7586045 GTCAAAGTCAACGGGTCAA
1 GTCAAAGTCAACGAGTCAA
7586064 GTCAAAGTCAACGAGTCA
1 GTCAAAGTCAACGAGTCA
7586082 GGTCGGGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (19 bp):
GTCAAAGTCAACGAGTCAA
Found at i:7587401 original size:75 final size:75
Alignment explanation
Indices: 7587311--7587508 Score: 238
Period size: 75 Copynumber: 2.6 Consensus size: 75
7587301 AATCATAAAT
* * * * * *
7587311 AATGTCAAATATCAAGACTCAAACAACAATATTAAGTTTATAGTAGTAAAATCCATAA-ACAAAC
1 AATGTCAAATTTCAAGACTCAAACAATAATATTAAGTCTAGAATAATAAAATCCATAATA-AAAC
7587375 AACAATATTAA
65 AACAATATTAA
* * * *
7587386 AATGTCAAATTTCAAGATTCAAACCATAATATTAACTCTAGAATAATAAAATCCATAATAAAACC
1 AATGTCAAATTTCAAGACTCAAACAATAATATTAAGTCTAGAATAATAAAATCCATAATAAAACA
*
7587451 ATAATATTAA
66 ACAATATTAA
* * *
7587461 AGTGTCAAATCTT-AAGACTCAAACTATAATATTAAGTCTAGAAAAATA
1 AATGTCAAAT-TTCAAGACTCAAACAATAATATTAAGTCTAGAATAATA
7587509 TTAAACTCAA
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
75 102 0.97
76 3 0.03
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.28
Consensus pattern (75 bp):
AATGTCAAATTTCAAGACTCAAACAATAATATTAAGTCTAGAATAATAAAATCCATAATAAAACA
ACAATATTAA
Found at i:7587454 original size:11 final size:12
Alignment explanation
Indices: 7587428--7587456 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7587418 TAACTCTAGA
7587428 ATAATAAAATCC
1 ATAATAAAATCC
7587440 ATAATAAAA-CC
1 ATAATAAAATCC
7587451 ATAATA
1 ATAATA
7587457 TTAAAGTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.62, C:0.14, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAATAAAATCC
Found at i:7595140 original size:24 final size:24
Alignment explanation
Indices: 7595091--7595144 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
7595081 TATAAGTGAG
*
7595091 TATATTATTTAAAAAATATACTAT
1 TATATTATTTAAAAAATATAATAT
7595115 TATATTA-TT-AAAAATATTAATAAT
1 TATATTATTTAAAAAATA-TAAT-AT
7595139 TATATT
1 TATATT
7595145 CTAAATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 7 0.26
23 5 0.19
24 15 0.56
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TATATTATTTAAAAAATATAATAT
Found at i:7597554 original size:2 final size:2
Alignment explanation
Indices: 7597515--7597539 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7597505 AGATCTTGCC
7597515 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 A
7597540 ACTTGGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7601546 original size:29 final size:29
Alignment explanation
Indices: 7601500--7601574 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
7601490 TTTATTAATA
*
7601500 ATTTTAAT-A-ATATAATATTTTATTTTT
1 ATTTTAATAATATATAATATTGTATTTTT
*
7601527 ATTGTT-ATAATATATGATATTGTATTTTT
1 ATT-TTAATAATATATAATATTGTATTTTT
7601556 ATTTTAATAATATATAATA
1 ATTTTAATAATATATAATA
7601575 AATTATCAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.12
28 5 0.12
29 31 0.76
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (29 bp):
ATTTTAATAATATATAATATTGTATTTTT
Found at i:7602067 original size:27 final size:26
Alignment explanation
Indices: 7602000--7602077 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 26
7601990 TAATATAGGC
* *
7602000 ATAAATAATATTAAATAAATTAT-TCTA
1 ATAAATAATATTATAT-TATTATAT-TA
* *
7602027 ATAATTAATTTTATTATTATTATATTA
1 ATAAATAATATTA-TATTATTATATTA
7602054 ATAAATAATATTAT-TTATTATATT
1 ATAAATAATATTATATTATTATATT
7602078 TGATGTTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
25 10 0.23
26 1 0.02
27 29 0.67
28 3 0.07
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (26 bp):
ATAAATAATATTATATTATTATATTA
Found at i:7605316 original size:29 final size:29
Alignment explanation
Indices: 7605279--7605403 Score: 112
Period size: 29 Copynumber: 4.3 Consensus size: 29
7605269 ATATTTACCG
7605279 AAATAGCACCCTTTTCGAATTAATTCCCA
1 AAATAGCACCCTTTTCGAATTAATTCCCA
**
7605308 AAATAGCACCAATTTCGAATTAATTCCCA
1 AAATAGCACCCTTTTCGAATTAATTCCCA
* * * ** *
7605337 GAATATCA--CTTTTCAAAAAAAATTACCA
1 AAATAGCACCCTTTTC-GAATTAATTCCCA
* *
7605365 AAATAACACCCATTTT-GAATTAATTCCCG
1 AAATAGCACCC-TTTTCGAATTAATTCCCA
*
7605394 GAATAGCACC
1 AAATAGCACC
7605404 AAAACCGAAT
Statistics
Matches: 73, Mismatches: 19, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
27 4 0.05
28 15 0.21
29 49 0.67
30 1 0.01
31 4 0.05
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (29 bp):
AAATAGCACCCTTTTCGAATTAATTCCCA
Found at i:7605470 original size:18 final size:18
Alignment explanation
Indices: 7605440--7605492 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
7605430 ACCGGTCAAC
*
7605440 GGTCAAC-GGTCGGGTCG
1 GGTCAACGGGTCGGGTCA
*
7605457 GGTCAAGGGGTCGGGTCA
1 GGTCAACGGGTCGGGTCA
7605475 GGTCAACGGGTCGGGTCA
1 GGTCAACGGGTCGGGTCA
7605493 TGACCGGTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 6 0.19
18 26 0.81
ACGTcount: A:0.15, C:0.21, G:0.47, T:0.17
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCA
Found at i:7612646 original size:29 final size:29
Alignment explanation
Indices: 7612492--7612674 Score: 161
Period size: 29 Copynumber: 6.3 Consensus size: 29
7612482 CATTTTACAC
* * * *
7612492 AAATAGCACCCTTTTTAAAATAATTACCA
1 AAATAGCACCATTTTCAAATTAATTCCCA
* *
7612521 AAACAGCACC-TTTTCGAATTAATTCCCA
1 AAATAGCACCATTTTCAAATTAATTCCCA
* *
7612549 AAATAGCACCAATTTCGAATTAATTCCCA
1 AAATAGCACCATTTTCAAATTAATTCCCA
* * ** * ** *
7612578 GAATATCACTTTTTTGAAAACAATTACCA
1 AAATAGCACCATTTTCAAATTAATTCCCA
*
7612607 AATTAGCACCATTTTCAAATTAATTCCCA
1 AAATAGCACCATTTTCAAATTAATTCCCA
*** *
7612636 AAATAGCACCAAAATCGAATTAATTCCCA
1 AAATAGCACCATTTTCAAATTAATTCCCA
*
7612665 TAATAGCACC
1 AAATAGCACC
7612675 GGTCAACGGT
Statistics
Matches: 121, Mismatches: 32, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
28 23 0.19
29 98 0.81
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.29
Consensus pattern (29 bp):
AAATAGCACCATTTTCAAATTAATTCCCA
Found at i:7612658 original size:87 final size:85
Alignment explanation
Indices: 7612503--7612669 Score: 253
Period size: 87 Copynumber: 1.9 Consensus size: 85
7612493 AATAGCACCC
* * **
7612503 TTTTTAAAATAATTACCAAAACAGCACCTTTTCGAATTAATTCCCAAAATAGCACCAATTTCGAA
1 TTTTTAAAACAATTACCAAAACAGCACCTTTTCAAATTAATTCCCAAAATAGCACCAAAATCGAA
7612568 TTAATTCCCAGAATATCACT
66 TTAATTCCCAGAATATCACT
**
7612588 TTTTTGAAAACAATTACCAAATTAGCACCATTTTCAAATTAATTCCCAAAATAGCACCAAAATCG
1 TTTTT-AAAACAATTACCAAAACAGCACC-TTTTCAAATTAATTCCCAAAATAGCACCAAAATCG
*
7612653 AATTAATTCCCATAATA
64 AATTAATTCCCAGAATA
7612670 GCACCGGTCA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 5 0.07
86 20 0.27
87 48 0.66
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.31
Consensus pattern (85 bp):
TTTTTAAAACAATTACCAAAACAGCACCTTTTCAAATTAATTCCCAAAATAGCACCAAAATCGAA
TTAATTCCCAGAATATCACT
Found at i:7612716 original size:18 final size:18
Alignment explanation
Indices: 7612682--7612745 Score: 94
Period size: 18 Copynumber: 3.6 Consensus size: 18
7612672 ACCGGTCAAC
*
7612682 GGTCAAC-GGTCGGGTCG
1 GGTCAACGGGTAGGGTCG
7612699 GGTCAACGGGTAGGGTCG
1 GGTCAACGGGTAGGGTCG
* *
7612717 GGTCAACGGGTAGGGCCA
1 GGTCAACGGGTAGGGTCG
7612735 GGTCAACGGGT
1 GGTCAACGGGT
7612746 CGAGTCATGA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
17 7 0.16
18 36 0.84
ACGTcount: A:0.17, C:0.20, G:0.47, T:0.16
Consensus pattern (18 bp):
GGTCAACGGGTAGGGTCG
Found at i:7613796 original size:20 final size:20
Alignment explanation
Indices: 7613735--7613787 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
7613725 AAGGGTATAA
* *
7613735 CATAAA-AAAGATTAAAATT
1 CATAAATAAATATAAAAATT
7613754 -ATAAATAAATATAAAAATT
1 CATAAATAAATATAAAAATT
7613773 CATAAATAAAT-TAAA
1 CATAAATAAATATAAA
7613788 TACATCATAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 5 0.17
19 15 0.50
20 10 0.33
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (20 bp):
CATAAATAAATATAAAAATT
Found at i:7617761 original size:23 final size:23
Alignment explanation
Indices: 7617731--7617790 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
7617721 AACATGCAAA
7617731 ACTAACCAAATTTAGGTTATATC
1 ACTAACCAAATTTAGGTTATATC
7617754 ACTAACCAAATTTAGGTTATATC
1 ACTAACCAAATTTAGGTTATATC
*
7617777 ACTAACCAAGTTTA
1 ACTAACCAAATTTA
7617791 TGGTCACTGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.33
Consensus pattern (23 bp):
ACTAACCAAATTTAGGTTATATC
Found at i:7621965 original size:29 final size:30
Alignment explanation
Indices: 7621924--7621988 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
7621914 TATAATAAAA
**
7621924 AATCAATGTGACCACCAAACT-TTCAATTG
1 AATCAATAAGACCACCAAACTATTCAATTG
* *
7621953 AATCAATAAGACCACCCAACTATTTAATTG
1 AATCAATAAGACCACCAAACTATTCAATTG
*
7621983 ATTCAA
1 AATCAA
7621989 ATCACCGGTC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.28
Consensus pattern (30 bp):
AATCAATAAGACCACCAAACTATTCAATTG
Found at i:7622901 original size:29 final size:29
Alignment explanation
Indices: 7622868--7622931 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
7622858 AAAATATCAG
*
7622868 TTAATTCAGTTATGTTAATAATTTTCAAA
1 TTAATTCAGTTAGGTTAATAATTTTCAAA
*
7622897 TTAATTCAGTTCGGTTAATAATTTTCAAA
1 TTAATTCAGTTAGGTTAATAATTTTCAAA
*
7622926 TAAATT
1 TTAATT
7622932 TTGGTTCGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.47
Consensus pattern (29 bp):
TTAATTCAGTTAGGTTAATAATTTTCAAA
Found at i:7622915 original size:127 final size:127
Alignment explanation
Indices: 7622677--7623060 Score: 416
Period size: 139 Copynumber: 2.9 Consensus size: 127
7622667 TTGGTTCGAT
* *** * * *
7622677 TAACTGAACCGAATTATTTGAATTTTTACTTCGCTTAATTTGATTAATAATTTTAAAAAATT-GG
1 TAACCGAACCGAATTAACCGAATTTTTGCTTCGATTAATTTGGTTAATAATTTTAAAAAATTCGG
* * *
7622741 TTAATTCGGTTCGGTTAATAATTGTCAAATTAATTCGGTTCGATTAATAATTTT-TAAA-C-
66 TTAATTCGGTTCTGTTAATAATTTTCAAATTAATTCGGTTCGGTTAATAATTTTATAAATCA
*
7622800 TAACCGAACCGAATTAACCGAATTTTTGCTTCGATTAATTCGGTTAATAATTTTTTAAAAAATAT
1 TAACCGAACCGAATTAACCGAATTTTTGCTTCGATTAATTTGGTTAATAA--TTTTAAAAAAT-T
* * * *
7622865 CAGTTAATTCAGTTATGTTAATAATTTTCAAATTAATTCAGTTCGGTTAATAATTTTCAAATAAA
63 CGGTTAATTCGGTTCTGTTAATAATTTTCAAATTAATTCGGTTCGGTTAATAATTTT---ATAAA
7622930 TTTTGGTTCGA
125 -------TC-A
* * *
7622941 TTAACCGAACCAAATTAACCGAATTTTTGCTTCAATTAATTTGGTTAATAATTTTGAAAAATTCG
1 -TAACCGAACCGAATTAACCGAATTTTTGCTTCGATTAATTTGGTTAATAATTTTAAAAAATTCG
* * *
7623006 GTTAATTCGGTTCTTTTAATAAATTTCAAATTAATTCGGTTAGGTTAATAATTTT
65 GTTAATTCGGTTCTGTTAATAATTTTCAAATTAATTCGGTTCGGTTAATAATTTT
7623061 CAAATAAATT
Statistics
Matches: 216, Mismatches: 26, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
123 42 0.19
125 11 0.05
126 1 0.00
127 49 0.23
131 4 0.02
139 52 0.24
140 10 0.05
142 47 0.22
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.43
Consensus pattern (127 bp):
TAACCGAACCGAATTAACCGAATTTTTGCTTCGATTAATTTGGTTAATAATTTTAAAAAATTCGG
TTAATTCGGTTCTGTTAATAATTTTCAAATTAATTCGGTTCGGTTAATAATTTTATAAATCA
Found at i:7623044 original size:29 final size:29
Alignment explanation
Indices: 7623007--7623070 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
7622997 AAAAATTCGG
***
7623007 TTAATTCGGTTCTTTTAATAAATTTCAAA
1 TTAATTCGGTTAGGTTAATAAATTTCAAA
*
7623036 TTAATTCGGTTAGGTTAATAATTTTCAAA
1 TTAATTCGGTTAGGTTAATAAATTTCAAA
*
7623065 TAAATT
1 TTAATT
7623071 TTGGTTCAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (29 bp):
TTAATTCGGTTAGGTTAATAAATTTCAAA
Found at i:7623063 original size:139 final size:141
Alignment explanation
Indices: 7622800--7623107 Score: 467
Period size: 139 Copynumber: 2.2 Consensus size: 141
7622790 ATTTTTAAAC
*
7622800 TAACCGAACCGAATTAACCGAATTTTTGCTTCGATTAATTCGGTTAATAATTTTTTAAAAAATAT
1 TAACCGAACCGAATTAACCGAATTTTTGCTTCAATTAATTCGGTTAATAA-TTTTTAAAAAATAT
* *
7622865 CAGTTAATTCAGTTATGTTAATAATTTTCAAATTAATTCAGTTCGGTTAATAATTTTCAAATAAA
65 CAGTTAATTCAGTTATGTTAATAAATTTCAAATTAATTCAGTTAGGTTAATAATTTTCAAATAAA
*
7622930 TTTTGGTTCGAT
130 TTTTGGTTCAAT
* * *
7622942 TAACCGAACCAAATTAACCGAATTTTTGCTTCAATTAATTTGGTTAATAA-TTTTGAAAAAT-TC
1 TAACCGAACCGAATTAACCGAATTTTTGCTTCAATTAATTCGGTTAATAATTTTTAAAAAATATC
* * * * *
7623005 GGTTAATTCGGTTCTTTTAATAAATTTCAAATTAATTCGGTTAGGTTAATAATTTTCAAATAAAT
66 AGTTAATTCAGTTATGTTAATAAATTTCAAATTAATTCAGTTAGGTTAATAATTTTCAAATAAAT
7623070 TTTGGTTCAAT
131 TTTGGTTCAAT
* *
7623081 TAATCGAACTGAATTAACCGAATTTTT
1 TAACCGAACCGAATTAACCGAATTTTT
7623108 TTCTTTAACC
Statistics
Matches: 151, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
139 94 0.62
140 10 0.07
142 47 0.31
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.42
Consensus pattern (141 bp):
TAACCGAACCGAATTAACCGAATTTTTGCTTCAATTAATTCGGTTAATAATTTTTAAAAAATATC
AGTTAATTCAGTTATGTTAATAAATTTCAAATTAATTCAGTTAGGTTAATAATTTTCAAATAAAT
TTTGGTTCAAT
Found at i:7625187 original size:18 final size:15
Alignment explanation
Indices: 7625160--7625212 Score: 63
Period size: 14 Copynumber: 3.4 Consensus size: 15
7625150 TTATTCATTT
7625160 ATTATTATTATTTTC
1 ATTATTATTATTTTC
7625175 ATCTAATTTATTATTTT-
1 AT-T-A-TTATTATTTTC
7625192 ATTATTATTATTTTC
1 ATTATTATTATTTTC
*
7625207 TTTATT
1 ATTATT
7625213 TCACTCGGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
14 10 0.30
15 8 0.24
16 2 0.06
17 3 0.09
18 10 0.30
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTATTATTATTTTC
Found at i:7629490 original size:183 final size:183
Alignment explanation
Indices: 7629182--7629535 Score: 609
Period size: 183 Copynumber: 1.9 Consensus size: 183
7629172 ATTAAATCCG
* *
7629182 TAAAGCTGAGCTATTCTACTAAGGCAATTGGTTATAGAGGGAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** *
7629247 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTATTTGCTCCACTGCTT
66 ATAGATTACATTCAAACCATGACACTGCTCGGACACTTGGCAATTCGGTATTTGCTCCACTGCTT
* *
7629312 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAAGCCAAAGACGTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
*
7629365 TAAAGCTGAGCTGTTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
* *
7629430 ATAGATTACATTCAAACCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTACATTCAAACCATGACACTGCTCGGACACTTGGCAATTCGGTATTTGCTCCACTGCTT
*
7629495 TTGTCAAGCCAAAGACGTTGTGATGAGATGAACCCTTCAGT
131 TTGTCAAGCCAAAGACGTTGTGATGAGACGAACCCTTCAGT
7629536 TAAACCTGAT
Statistics
Matches: 160, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
183 160 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTACATTCAAACCATGACACTGCTCGGACACTTGGCAATTCGGTATTTGCTCCACTGCTT
TTGTCAAGCCAAAGACGTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
Found at i:7630788 original size:37 final size:38
Alignment explanation
Indices: 7630733--7630807 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 38
7630723 ATGAATTTTT
* *
7630733 TCTCTCTTGAGATAGTTTCCCTCGAAACAGAAA-ATTG
1 TCTCCCTTGAGACAGTTTCCCTCGAAACAGAAACATTG
* * *
7630770 TCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTG
1 TCTCCCTTGAGACAGTTTCCCTCGAAACAGAAACATTG
7630808 AAAATATTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
37 28 0.88
38 4 0.12
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (38 bp):
TCTCCCTTGAGACAGTTTCCCTCGAAACAGAAACATTG
Found at i:7630890 original size:37 final size:37
Alignment explanation
Indices: 7630814--7630900 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 37
7630804 ATTGAAAATA
** * **
7630814 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATGG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
7630850 TTTCCCTTGAAACAAAATTTTTTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
* *
7630887 TTTCTCTTTAAACA
1 TTTCCCTTGAAACA
7630901 TAAACATTGA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 12 0.29
37 30 0.71
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.43
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:7630963 original size:36 final size:36
Alignment explanation
Indices: 7630916--7631000 Score: 125
Period size: 36 Copynumber: 2.4 Consensus size: 36
7630906 ATTGAAAACA
* * *
7630916 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
*
7630952 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACGG
1 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
*
7630988 TTTCTCTTGAAAC
1 TTTCCCTTGAAAC
7631001 ATAAACATTG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
Found at i:7631017 original size:101 final size:102
Alignment explanation
Indices: 7630721--7631220 Score: 774
Period size: 102 Copynumber: 4.9 Consensus size: 102
7630711 GTTTTTCTTA
* * **
7630721 AAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAATTGTCTCCCTTGAGACAGT
1 AAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAGAATTTTGTCTCCCTTGAGACAGT
*
7630786 TTCTCTTGAAACATAAACATTGAAAATATTTCCCTTG
66 TTCTCTTGAAACATAAACATTGAAAACATTTCCCTTG
* * *
7630823 AAATGAATTTTGTCTCTCTTGAGATGGTTTCCCTTGAAACAAAATTTTTTCTCCCTTGAGACAGT
1 AAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAGAATTTTGTCTCCCTTGAGACAGT
*
7630888 TTCTCTTTAAACATAAACATTGAAAACATTTCCCTTG
66 TTCTCTTGAAACATAAACATTGAAAACATTTCCCTTG
*
7630925 AAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC-GAATTTTGTCTCCCTTGAGACGGT
1 AAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAGAATTTTGTCTCCCTTGAGACAGT
7630989 TTCTCTTGAAACATAAACATTGAAAACATTTCCCTTG
66 TTCTCTTGAAACATAAACATTGAAAACATTTCCCTTG
* * * *
7631026 AAATAAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCATTGAGACA
1 AAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAG--AATTTTGTCTCCCTTGAGACA
7631091 GTTTCTCTTGAAACATAAACATTGAAAACATTTCTCC-TG
64 GTTTCTCTTGAAACATAAACATTGAAAACATTTC-CCTTG
* *
7631130 AAATGAATTTTATCTCGCTTGAGATAGTTTCCCTTGAAAC-GAATTTTGTCTCCCTTGAGACAG-
1 AAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAGAATTTTGTCTCCCTTGAGACAGT
** *
7631193 TTCTCTCCAAACATAAACTTTGAAAACA
66 TTCTCTTGAAACATAAACATTGAAAACA
7631221 ATTTAACGAA
Statistics
Matches: 367, Mismatches: 27, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
100 25 0.07
101 115 0.31
102 133 0.36
103 1 0.00
104 91 0.25
105 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.37
Consensus pattern (102 bp):
AAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAGAATTTTGTCTCCCTTGAGACAGT
TTCTCTTGAAACATAAACATTGAAAACATTTCCCTTG
Found at i:7631075 original size:39 final size:39
Alignment explanation
Indices: 7631030--7631105 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
7631020 CCCTTGAAAT
* *
7631030 AAATTTTTTCTCTC-TTGAGATAGTTTCCCTCGAAACAGA
1 AAATTTTGTCTC-CATTGAGACAGTTTCCCTCGAAACAGA
* *
7631069 AAATTTTGTCTCCATTGAGACAGTTTCTCTTGAAACA
1 AAATTTTGTCTCCATTGAGACAGTTTCCCTCGAAACA
7631106 TAAACATTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.03
39 31 0.97
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (39 bp):
AAATTTTGTCTCCATTGAGACAGTTTCCCTCGAAACAGA
Found at i:7631163 original size:205 final size:203
Alignment explanation
Indices: 7630721--7631220 Score: 788
Period size: 205 Copynumber: 2.5 Consensus size: 203
7630711 GTTTTTCTTA
* * **
7630721 AAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAATTGTCTCCCTTGAGACAGT
1 AAATGAATTTTATCTCTCTTGAGATAGTTTCCCTTGAAAC-GAATTTTGTCTCCCTTGAGACAGT
* * *
7630786 TTCTCTTGAAACATAAACATTGAAAATATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATGGT
65 TTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTGTCTCTCTTGAGATAGT
* * * *
7630851 TTCCCTTGAAACAAAATTTTTTCTCCCTTGAGACAGTTTCTCTTTAAACATAAACATTGAAAACA
130 TTCCCTCGAAACAAAATTTTGTCTCCATTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
7630916 TTTCCCTTG
195 TTTCCCTTG
* *
7630925 AAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACGGTT
1 AAATGAATTTTATCTCTCTTGAGATAGTTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAGTT
*
7630990 TCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTTTCTCTCTTGAGATAGTT
66 TCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTGTCTCTCTTGAGATAGTT
7631055 TCCCTCGAAACAGAAAATTTTGTCTCCATTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
131 TCCCTCGAAAC--AAAATTTTGTCTCCATTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
7631120 ATTTCTCC-TG
194 ATTTC-CCTTG
*
7631130 AAATGAATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG-T
1 AAATGAATTTTATCTCTCTTGAGATAGTTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAGTT
** *
7631194 TCTCTCCAAACATAAACTTTGAAAACA
66 TCTCTTGAAACATAAACATTGAAAACA
7631221 ATTTAACGAA
Statistics
Matches: 274, Mismatches: 19, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
203 93 0.34
204 63 0.23
205 116 0.42
206 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.37
Consensus pattern (203 bp):
AAATGAATTTTATCTCTCTTGAGATAGTTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAGTT
TCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTGTCTCTCTTGAGATAGTT
TCCCTCGAAACAAAATTTTGTCTCCATTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACAT
TTCCCTTG
Found at i:7631553 original size:109 final size:108
Alignment explanation
Indices: 7631362--7631589 Score: 375
Period size: 109 Copynumber: 2.1 Consensus size: 108
7631352 CAAACATCCA
*
7631362 CGATTTCAACTCCACGACGGAGGATATCGTGCCACTCAAGACAACACAAGTTCAACTTCACAACG
1 CGATTTCAACTCCACGACGGAGGATATCGTGCCACCCAAGACAACACAAGTTCAACTTCACAACG
*
7631427 AAGGGACGGCTGGTTGTCAACGAACAACTTTCCAATTTCAGAGC
66 AAGGGACGGCTGGTTGTCAAC-AACAACTTCCCAATTTCAGAGC
* * * *
7631471 CGATTTCAACTCCATGACGGAGGATATCGTGCTACCCGATACAACACAAGTTCAACTTCACAACG
1 CGATTTCAACTCCACGACGGAGGATATCGTGCCACCCAAGACAACACAAGTTCAACTTCACAACG
*
7631536 AAGGGACGGCTGGTTGTCAACAACAACTTCCCAATTTTAGAGC
66 AAGGGACGGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGC
*
7631579 CAATTTCAACT
1 CGATTTCAACT
7631590 TCGCAGCGAA
Statistics
Matches: 111, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
108 30 0.27
109 81 0.73
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (108 bp):
CGATTTCAACTCCACGACGGAGGATATCGTGCCACCCAAGACAACACAAGTTCAACTTCACAACG
AAGGGACGGCTGGTTGTCAACAACAACTTCCCAATTTCAGAGC
Found at i:7634698 original size:29 final size:29
Alignment explanation
Indices: 7634623--7634705 Score: 121
Period size: 29 Copynumber: 2.9 Consensus size: 29
7634613 TCCCAACACA
** *
7634623 TAGGTCGCCATGCCCTCAAGGCGACCTTG
1 TAGGTCGCCATGCCCTCCGGGCGACATTG
7634652 TAGGTCGCCATGCCCTCCGGGCGACATTG
1 TAGGTCGCCATGCCCTCCGGGCGACATTG
* *
7634681 TAGGTCGCCATGCACTCCGGACGAC
1 TAGGTCGCCATGCCCTCCGGGCGAC
7634706 CTACCTTCGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.17, C:0.35, G:0.29, T:0.19
Consensus pattern (29 bp):
TAGGTCGCCATGCCCTCCGGGCGACATTG
Found at i:7634785 original size:23 final size:23
Alignment explanation
Indices: 7634726--7634785 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
7634716 TCGACTGCCC
* *
7634726 TCGGATTCCCTCGCATAGCTCGT
1 TCGGATGCCCTCGGATAGCTCGT
*
7634749 TCGGTTGCCCTCGGATAGCTCGT
1 TCGGATGCCCTCGGATAGCTCGT
*
7634772 TCGGATGGCCTCGG
1 TCGGATGCCCTCGG
7634786 TCGGATGGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.10, C:0.32, G:0.30, T:0.28
Consensus pattern (23 bp):
TCGGATGCCCTCGGATAGCTCGT
Found at i:7634789 original size:14 final size:14
Alignment explanation
Indices: 7634767--7634799 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7634757 CCTCGGATAG
*
7634767 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
7634781 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
7634795 CTCGG
1 CTCGG
7634800 ATGCTCTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.30, G:0.39, T:0.24
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:7634817 original size:20 final size:20
Alignment explanation
Indices: 7634789--7634826 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7634779 GCCTCGGTCG
* *
7634789 GATGGCCTCGGATGCTCTTT
1 GATGACCTCAGATGCTCTTT
7634809 GATGACCTCAGATGCTCT
1 GATGACCTCAGATGCTCT
7634827 CAGATGGTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.26, G:0.26, T:0.32
Consensus pattern (20 bp):
GATGACCTCAGATGCTCTTT
Found at i:7634832 original size:20 final size:20
Alignment explanation
Indices: 7634789--7634832 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
7634779 GCCTCGGTCG
* * **
7634789 GATGGCCTCGGATGCTCTTT
1 GATGACCTCAGATGCTCTCA
7634809 GATGACCTCAGATGCTCTCA
1 GATGACCTCAGATGCTCTCA
7634829 GATG
1 GATG
7634833 GTCTCGGTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.18, C:0.25, G:0.27, T:0.30
Consensus pattern (20 bp):
GATGACCTCAGATGCTCTCA
Found at i:7636705 original size:2 final size:2
Alignment explanation
Indices: 7636693--7636731 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
7636683 ATCAAATACT
*
7636693 TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
7636732 GTTTTTTCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:7638296 original size:23 final size:23
Alignment explanation
Indices: 7638265--7638319 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
7638255 GTAATGATAC
* *
7638265 TTCTATTTATGCATACTTATCAG
1 TTCTGTTTATGCATACTTATCAA
7638288 TTCTGTTTATGCATACTTATCAA
1 TTCTGTTTATGCATACTTATCAA
*
7638311 TTGTGTTTA
1 TTCTGTTTA
7638320 CTGTCCATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.24, C:0.15, G:0.11, T:0.51
Consensus pattern (23 bp):
TTCTGTTTATGCATACTTATCAA
Found at i:7642313 original size:21 final size:21
Alignment explanation
Indices: 7642289--7642359 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
7642279 TTGAAAATCG
7642289 CGTTGCGATAGTCTACAGTGT
1 CGTTGCGATAGTCTACAGTGT
* * *
7642310 CGTTGCGAT--TTTCCA-TTT
1 CGTTGCGATAGTCTACAGTGT
7642328 CGCGTTGCGATAGTCTACAGTGT
1 --CGTTGCGATAGTCTACAGTGT
7642351 CGTTGCGAT
1 CGTTGCGAT
7642360 TTTTCATTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
18 2 0.05
19 4 0.10
20 9 0.23
21 18 0.46
22 4 0.10
23 2 0.05
ACGTcount: A:0.15, C:0.21, G:0.27, T:0.37
Consensus pattern (21 bp):
CGTTGCGATAGTCTACAGTGT
Found at i:7642335 original size:41 final size:41
Alignment explanation
Indices: 7642286--7642597 Score: 224
Period size: 41 Copynumber: 7.4 Consensus size: 41
7642276 TAGTTGAAAA
*
7642286 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTCTACAATGTCGTTGCGATTTTCCATT
* *
7642327 TCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTTCATT
1 TCGCGTTGCGATAGTCTACAATGTCGTTGCGATTTTCCATT
* * * * *
7642368 CCGCGTTGCGATAGAT-GAAAATCG-CTTTGCGATAGTGTACAGTCATT
1 TCGCGTTGCGATAG-TCTACAAT-GTCGTTGCGAT--T-TTC---CATT
* * * * * ** **
7642415 GCGATCGTTGCGAT--T-TTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCG--CGTTGCGATAGTCTACAATGT--CGTTGCGAT-TTTCCATT
* * * *
7642458 TCGCGTTGCGATAGTGTACAGTGTCATTGCGATTTTCCATC
1 TCGCGTTGCGATAGTCTACAATGTCGTTGCGATTTTCCATT
* * *
7642499 TCGCATTGAGATAGTGTACAATGTCGTTGCGATTTTCCATT
1 TCGCGTTGCGATAGTCTACAATGTCGTTGCGATTTTCCATT
*
7642540 TCGCGTTGCGATAGTCTACAATGTCGTTGCGATTTTCCAAAT
1 TCGCGTTGCGATAGTCTACAATGTCGTTGCGATTTTCC-ATT
7642582 T--CGTTGCGATAGTCTA
1 TCGCGTTGCGATAGTCTA
7642598 TAGTAAATTA
Statistics
Matches: 212, Mismatches: 42, Indels: 35
0.73 0.15 0.12
Matches are distributed among these distances:
40 15 0.07
41 147 0.69
42 13 0.06
43 5 0.02
44 5 0.02
46 4 0.02
47 6 0.03
48 8 0.04
49 9 0.04
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.37
Consensus pattern (41 bp):
TCGCGTTGCGATAGTCTACAATGTCGTTGCGATTTTCCATT
Found at i:7642461 original size:69 final size:70
Alignment explanation
Indices: 7642350--7642490 Score: 230
Period size: 69 Copynumber: 2.0 Consensus size: 70
7642340 GTCTACAGTG
* *
7642350 TCGTTGCGATTTTTCATTCCGCGTTGCGATAGATGAAAATCGCTTTGCGATAGTGTACA-GTCAT
1 TCGTTGCGATTTTCCATTCCGCGTTGCGATAGATGAAAATCGCGTTGCGATAGTGTACAGGTCAT
7642414 TGCGA
66 TGCGA
* *
7642419 TCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTGTACAGTGTCA
1 TCGTTGCGATTTTCCATTCCGCGTTGCGATAGATGAAAATCGCGTTGCGATAGTGTACAG-GTCA
7642484 TTGCGA
65 TTGCGA
7642490 T
1 T
7642491 TTTCCATCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
69 55 0.83
71 11 0.17
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (70 bp):
TCGTTGCGATTTTCCATTCCGCGTTGCGATAGATGAAAATCGCGTTGCGATAGTGTACAGGTCAT
TGCGA
Found at i:7642568 original size:103 final size:102
Alignment explanation
Indices: 7642265--7642573 Score: 293
Period size: 103 Copynumber: 2.9 Consensus size: 102
7642255 GCAATGCATT
* * * * * *
7642265 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATTTCG
1 TCGCATTGCGATAGATCAAAATCGCATTGCGATAGTGTACAATGTCGTTGCGATTTTCCATTTCG
* * * *
7642330 CGTTGCGATAGTCTACAGTGTCGTTGCGATTTTTCAT
66 CGTTGCGATAGTCTACAATGTCGTTGCGATTGTACAG
* * *
7642367 TCCGCGTTGCGATAGATGAAAATCGCTTTGCGATAGTGTACAGTCATTGCGATCGTTGCGATTTT
1 T-CGCATTGCGATAGATCAAAATCGCATTGCGATAGTGTACA---A-T--G-TCGTTGCGATTTT
*
7642432 CCATTTCGCGTTGCGATAGT-TGAAAATCG-CGTTGCGATAGTGTACAG
58 CCATTTCGCGTTGCGATAGTCT-ACAAT-GTCGTTGCGAT--TGTACAG
** * ** *
7642479 T-GTCATTGCGAT-TTTCCATCTCGCATTGAGATAGTGTACAATGTCGTTGCGATTTTCCATTTC
1 TCG-CATTGCGATAGATCAAAATCGCATTGCGATAGTGTACAATGTCGTTGCGATTTTCCATTTC
7642542 GCGTTGCGATAGTCTACAATGTCGTTGCGATT
65 GCGTTGCGATAGTCTACAATGTCGTTGCGATT
7642574 TTCCAAATTC
Statistics
Matches: 173, Mismatches: 19, Indels: 31
0.78 0.09 0.14
Matches are distributed among these distances:
101 1 0.01
102 2 0.01
103 83 0.48
104 2 0.01
106 1 0.01
107 2 0.01
109 2 0.01
110 66 0.38
111 9 0.05
112 5 0.03
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (102 bp):
TCGCATTGCGATAGATCAAAATCGCATTGCGATAGTGTACAATGTCGTTGCGATTTTCCATTTCG
CGTTGCGATAGTCTACAATGTCGTTGCGATTGTACAG
Found at i:7642569 original size:21 final size:19
Alignment explanation
Indices: 7642543--7642597 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
7642533 TTCCATTTCG
7642543 CGTTGCGATAGTCTACAATGT
1 CGTTGCGATAGTCTA-AAT-T
** *
7642564 CGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTAAATT
7642583 CGTTGCGATAGTCTA
1 CGTTGCGATAGTCTA
7642598 TAGTAAATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 13 0.46
20 3 0.11
21 12 0.43
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (19 bp):
CGTTGCGATAGTCTAAATT
Found at i:7643207 original size:6 final size:6
Alignment explanation
Indices: 7643196--7643222 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7643186 TCTCGTCTCG
7643196 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
7643223 AATACGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:7643320 original size:20 final size:20
Alignment explanation
Indices: 7643295--7643469 Score: 113
Period size: 20 Copynumber: 8.6 Consensus size: 20
7643285 ACTGTACACT
*
7643295 ATCGCAACGCGAAATGGATA
1 ATCGCAACGCGAAATGGAAA
** ** *
7643315 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
7643336 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* * **
7643356 ATCGCAACGAC-ACTATAGACT
1 ATCGCAACG-CGA-AATGGAAA
7643377 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* * **
7643397 ATCGC-A-TCGACACTGTAGATT
1 ATCGCAACGCGA-AATG--GAAA
*
7643418 ATCGCAACGCGAAAAGGAAA
1 ATCGCAACGCGAAATGGAAA
* *
7643438 ATCGTAACGCGAAATAGAAA
1 ATCGCAACGCGAAATGGAAA
*
7643458 ATCGCAATGCGA
1 ATCGCAACGCGA
7643470 TTTTCAACTA
Statistics
Matches: 113, Mismatches: 33, Indels: 18
0.69 0.20 0.11
Matches are distributed among these distances:
18 3 0.03
19 4 0.04
20 63 0.56
21 37 0.33
22 3 0.03
23 3 0.03
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Done.