Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008743.1 Hibiscus syriacus cultivar Beakdansim tig00111832_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: 979257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:699847 original size:21 final size:21
Alignment explanation
Indices: 699779--699854 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 21
699769 GGCCTTCCCT
*
699779 ATCGTTCAAGAGGCCTCTATC
1 ATCGTTCAAGAGGCCACTATC
** * * *
699800 ATCCCTCAAGAGTCCCCTCTC
1 ATCGTTCAAGAGGCCACTATC
* * *
699821 ACCGTTCAAGAGGCCACTGTT
1 ATCGTTCAAGAGGCCACTATC
*
699842 ATCGTTGAAGAGG
1 ATCGTTCAAGAGG
699855 TCCCTCCCAA
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCACTATC
Found at i:701204 original size:14 final size:14
Alignment explanation
Indices: 701170--701231 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
701160 TCGCTTGTTT
*
701170 AATTGATTTATAAA
1 AATTGATTTGTAAA
*
701184 AACTGATTTGTAAA
1 AATTGATTTGTAAA
* *
701198 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
701213 TATTGATGTGTAAA
1 AATTGATTTGTAAA
701227 TAATT
1 -AATT
701232 CTTATTTGTG
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
14 23 0.64
15 13 0.36
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.45
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:701383 original size:20 final size:20
Alignment explanation
Indices: 701330--701383 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
701320 AGGTACACTT
* **
701330 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAAGACAAAA
*
701350 TCGCAATGCGAAAGACAAAA
1 TCGCAACGCGAAAGACAAAA
701370 TCGCAACGCGAAAG
1 TCGCAACGCGAAAG
701384 TCAATTCGCG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAAGACAAAA
Found at i:701399 original size:19 final size:20
Alignment explanation
Indices: 701377--701419 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
701367 AAATCGCAAC
*
701377 GCGAAAGTC-AATTCGCGTT
1 GCGAAAGTCTAATACGCGTT
* *
701396 GCGATAGTCTAATACGCTTT
1 GCGAAAGTCTAATACGCGTT
701416 GCGA
1 GCGA
701420 TTTTCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (20 bp):
GCGAAAGTCTAATACGCGTT
Found at i:701436 original size:34 final size:34
Alignment explanation
Indices: 701392--701528 Score: 141
Period size: 34 Copynumber: 3.9 Consensus size: 34
701382 AGTCAATTCG
* *
701392 CGTTGCGATAGTCTAATACGCTTTGCGATTTTCT
1 CGTTGCGATAGTCAAATACGCGTTGCGATTTTCT
* * *
701426 CGTTGTGATAGTCAAATACCCGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATACGCGTTGCGAT--T----TTCT
* *
701466 CGTTGCGATACTCAAATTCGCGTTGCGATTTTCT
1 CGTTGCGATAGTCAAATACGCGTTGCGATTTTCT
701500 CGTTGCGATAGTCAAATA-GCCGTTGCGAT
1 CGTTGCGATAGTCAAATACG-CGTTGCGAT
701529 AGTCAAATTC
Statistics
Matches: 84, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
33 1 0.01
34 53 0.63
36 1 0.01
38 1 0.01
40 28 0.33
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (34 bp):
CGTTGCGATAGTCAAATACGCGTTGCGATTTTCT
Found at i:701455 original size:20 final size:20
Alignment explanation
Indices: 701426--701670 Score: 219
Period size: 20 Copynumber: 12.8 Consensus size: 20
701416 GCGATTTTCT
* * *
701426 CGTTGTGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCG
*
701446 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
701466 CGTTGCGATACTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
701486 CGTTGCGAT--T----TTCT
1 CGTTGCGATAGTCAAATTCG
*
701500 CGTTGCGATAGTCAAA-TAG
1 CGTTGCGATAGTCAAATTCG
701519 CCGTTGCGATAGTCAAATTCG
1 -CGTTGCGATAGTCAAATTCG
* *
701540 CGTTGCGATAGACAAATTTG
1 CGTTGCGATAGTCAAATTCG
* * *
701560 TGTTGC-A-A-T---TTTCT
1 CGTTGCGATAGTCAAATTCG
* * *
701574 CTTTGCAATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
* *
701594 TGTTGCGATAGTCAAAGTCG
1 CGTTGCGATAGTCAAATTCG
701614 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
701634 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
701654 CATTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
701671 GAATGTGTAA
Statistics
Matches: 182, Mismatches: 29, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
14 18 0.10
15 1 0.01
16 2 0.01
17 1 0.01
18 2 0.01
19 2 0.01
20 154 0.85
21 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:701504 original size:54 final size:54
Alignment explanation
Indices: 701446--701548 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
701436 GTCAAATACC
*
701446 CGTTGCGATAATCAAAT-TCGCGTTGCGATACTCAAATTCGCGTTGCGATTTTCT
1 CGTTGCGATAATCAAATAGC-CGTTGCGATACTCAAATTCGCGTTGCGATTTTCT
* *
701500 CGTTGCGATAGTCAAATAGCCGTTGCGATAGTCAAATTCGCGTTGCGAT
1 CGTTGCGATAATCAAATAGCCGTTGCGATACTCAAATTCGCGTTGCGAT
701549 AGACAAATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
54 44 0.98
55 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (54 bp):
CGTTGCGATAATCAAATAGCCGTTGCGATACTCAAATTCGCGTTGCGATTTTCT
Found at i:701510 original size:74 final size:74
Alignment explanation
Indices: 701377--701642 Score: 354
Period size: 74 Copynumber: 3.6 Consensus size: 74
701367 AAATCGCAAC
* * * * *
701377 GCGAAAGTC-AATTCGCGTTGCGATAGTCTAATACGCTTTGCGATTTTCTCGTTGTGATAGTCAA
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAA
701441 ATACCCGTT
66 ATACCCGTT
* *
701450 GCGATAATCAAATTCGCGTTGCGATACTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAA
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAA
*
701515 ATAGCCGTT
66 ATACCCGTT
* * * * * * *
701524 GCGATAGTCAAATTCGCGTTGCGATAGACAAATTTGTGTTGCAATTTTCTCTTTGCAATAGTCAT
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAA
* **
701589 ATTCGTGTT
66 ATACCCGTT
*
701598 GCGATAGTCAAAGTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGAT
701643 AGTCAAATTC
Statistics
Matches: 166, Mismatches: 26, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
73 7 0.04
74 159 0.96
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.34
Consensus pattern (74 bp):
GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAA
ATACCCGTT
Found at i:701524 original size:94 final size:95
Alignment explanation
Indices: 701426--701670 Score: 259
Period size: 94 Copynumber: 2.6 Consensus size: 95
701416 GCGATTTTCT
* * * * * *
701426 CGTTGTGATAGTCAAATACCCGTTGCGATAATCAAATTCGCGTTGCGATACTCAAATTCGC-GTT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGATATTCAAATTCGCAATA
*
701490 G-CGATTTTC-TCGTTGCGATAGTCAAA-TAG
66 GTC-ATATTCGT-GTTGCGATAGTCAAAGTAG
* * * * ** *
701519 CCGTTGCGATAGTCAAATTCGCGTTGCGATAGA-CAAATTTGTGTTGCAATTTTC-TCTTTGCAA
1 -CGTTGCGATAGTCAAATTCGCGTTGCGATA-ATCAAATTCGCGTTGCGATATTCAAATTCGCAA
*
701582 TAGTCATATTCGTGTTGCGATAGTCAAAGTCG
64 TAGTCATATTCGTGTTGCGATAGTCAAAGTAG
* *
701614 CGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCATTGCGATATTCAAAT
1 CGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGATATTCAAAT
701671 GAATGTGTAA
Statistics
Matches: 121, Mismatches: 23, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
93 4 0.03
94 111 0.92
95 6 0.05
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (95 bp):
CGTTGCGATAGTCAAATTCGCGTTGCGATAATCAAATTCGCGTTGCGATATTCAAATTCGCAATA
GTCATATTCGTGTTGCGATAGTCAAAGTAG
Found at i:701853 original size:18 final size:18
Alignment explanation
Indices: 701830--701864 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
701820 AAGCCGGTTG
*
701830 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
701848 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
701865 GCCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:703922 original size:14 final size:14
Alignment explanation
Indices: 703903--703939 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
703893 TCCCGTGGCA
703903 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
703917 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
703931 TTCTTCTTC
1 TT-TTCTTC
703940 TTCTTCTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:703939 original size:3 final size:3
Alignment explanation
Indices: 703931--703963 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
703921 CTTCGGGGAT
703931 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
703964 AGGGTTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:705021 original size:20 final size:20
Alignment explanation
Indices: 704977--705023 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
704967 AAATTCAGTG
*
704977 TTGCAATTTACATACTCGCA
1 TTGCGATTTACATACTCGCA
*
704997 TTGCGATTTACATATTCGCA
1 TTGCGATTTACATACTCGCA
705017 TTGCGAT
1 TTGCGAT
705024 AGTCGGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (20 bp):
TTGCGATTTACATACTCGCA
Found at i:705733 original size:2 final size:2
Alignment explanation
Indices: 705728--705766 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
705718 TTTAAAACTA
705728 AT AT AT AT 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 AT AT AT AT A
705767 CACACACACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:706261 original size:17 final size:17
Alignment explanation
Indices: 706223--706261 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
706213 TGGTTCCCCA
*
706223 TCCCGAACACCCTCCGT
1 TCCCCAACACCCTCCGT
* *
706240 CCCCCAACACCCTTCGT
1 TCCCCAACACCCTCCGT
706257 TCCCC
1 TCCCC
706262 TTCAAATTTC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.15, C:0.59, G:0.08, T:0.18
Consensus pattern (17 bp):
TCCCCAACACCCTCCGT
Found at i:706352 original size:28 final size:28
Alignment explanation
Indices: 706312--706367 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
706302 GGCTATTAAG
*
706312 TTTCCAAATTAAGGGGTATTAAGGTTTA
1 TTTCCAAATTAAGGGCTATTAAGGTTTA
* *
706340 TTTCCAGATTAAGGGCTATTAAGTTTTA
1 TTTCCAAATTAAGGGCTATTAAGGTTTA
706368 GGGATTGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (28 bp):
TTTCCAAATTAAGGGCTATTAAGGTTTA
Found at i:707121 original size:43 final size:44
Alignment explanation
Indices: 707055--707143 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 44
707045 CATATCCCTA
707055 ATAATTTCTAATTATCTT-AAAAAAAAGATTAACTACTAAAATG
1 ATAATTTCTAATTATCTTAAAAAAAAAGATTAACTACTAAAATG
707098 ATAATTTCTAATTATCTTTAAAAAAAAAGATTAACTACTAAAATG
1 ATAATTTCTAATTATC-TTAAAAAAAAAGATTAACTACTAAAATG
707143 A
1 A
707144 ATCAAATGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 16 0.36
44 2 0.05
45 26 0.59
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.35
Consensus pattern (44 bp):
ATAATTTCTAATTATCTTAAAAAAAAAGATTAACTACTAAAATG
Found at i:707160 original size:43 final size:43
Alignment explanation
Indices: 707073--707154 Score: 114
Period size: 45 Copynumber: 1.9 Consensus size: 43
707063 TAATTATCTT
* *
707073 AAAAAAAAGATTAACTACTAAAATGATAATTTCTAATTATCTTTA
1 AAAAAAAAGATTAACTACTAAAATGA-AA-TTCAAATGATCTTTA
707118 AAAAAAAAGATTAACTACTAAAATG-AA-TCAAATGATC
1 AAAAAAAAGATTAACTACTAAAATGAAATTCAAATGATC
707155 ACTTTAGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 8 0.23
43 2 0.06
45 25 0.71
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (43 bp):
AAAAAAAAGATTAACTACTAAAATGAAATTCAAATGATCTTTA
Found at i:707416 original size:30 final size:31
Alignment explanation
Indices: 707334--707422 Score: 99
Period size: 31 Copynumber: 2.9 Consensus size: 31
707324 AATTTAATTC
* *
707334 ATAAATTTTAGATAAAATATTATTTTAATAT
1 ATAAATTTTAGATAAAATATCATTTTAACAT
* * *
707365 TTAAACTTTAAATAAAATATCATTTTAACA-
1 ATAAATTTTAGATAAAATATCATTTTAACAT
* * *
707395 ATATATTTTAGATATAATATCAATTTAA
1 ATAAATTTTAGATAAAATATCATTTTAA
707423 TCATCATTTA
Statistics
Matches: 47, Mismatches: 11, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
30 22 0.47
31 25 0.53
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.45
Consensus pattern (31 bp):
ATAAATTTTAGATAAAATATCATTTTAACAT
Found at i:712007 original size:20 final size:20
Alignment explanation
Indices: 711982--712026 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
711972 GTCATCCAAT
*
711982 TTTTTAAACTCCAAATCGGA
1 TTTTTAAACCCCAAATCGGA
712002 TTTTTAAACCCCAAATCGGA
1 TTTTTAAACCCCAAATCGGA
712022 TTTTT
1 TTTTT
712027 TTTCGGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (20 bp):
TTTTTAAACCCCAAATCGGA
Found at i:721928 original size:48 final size:48
Alignment explanation
Indices: 721872--721967 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
721862 GTGTCATGGG
*
721872 AAAACAAGCTTGCTTGGGCTTCTTCAACTTGGAAAGGTAAATATCTTC
1 AAAACAAGCTTGCTTGGGCTTCTTCAACATGGAAAGGTAAATATCTTC
721920 AAAACAAGCTTGCTTGGGCTTCTTCAACATGGAAAGGTAAATATCTTC
1 AAAACAAGCTTGCTTGGGCTTCTTCAACATGGAAAGGTAAATATCTTC
721968 TAACCTCCAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (48 bp):
AAAACAAGCTTGCTTGGGCTTCTTCAACATGGAAAGGTAAATATCTTC
Found at i:732144 original size:22 final size:22
Alignment explanation
Indices: 732116--732174 Score: 109
Period size: 22 Copynumber: 2.7 Consensus size: 22
732106 TCTCCTGTCT
732116 TATTCCCATTCATAATCACACG
1 TATTCCCATTCATAATCACACG
*
732138 TATTCCCATTCATAATCCCACG
1 TATTCCCATTCATAATCACACG
732160 TATTCCCATTCATAA
1 TATTCCCATTCATAA
732175 CCATTCTTCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.31, C:0.32, G:0.03, T:0.34
Consensus pattern (22 bp):
TATTCCCATTCATAATCACACG
Found at i:737259 original size:30 final size:31
Alignment explanation
Indices: 737223--737299 Score: 79
Period size: 30 Copynumber: 2.5 Consensus size: 31
737213 GGTTTTGATC
*
737223 TATTTAATTTTAGTATTTAAACTTTTAA-TTT
1 TATTTAATTTTAGTATTTAAA-ATTTAATTTT
** *
737254 T-TTTAAAATTA-TACTTAAAATTTAATTTT
1 TATTTAATTTTAGTATTTAAAATTTAATTTT
*
737283 TATTTCATTTTAGTATT
1 TATTTAATTTTAGTATT
737300 CACCGTTAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
28 5 0.14
29 11 0.31
30 15 0.43
31 4 0.11
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.60
Consensus pattern (31 bp):
TATTTAATTTTAGTATTTAAAATTTAATTTT
Found at i:737497 original size:31 final size:31
Alignment explanation
Indices: 737459--737519 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
737449 AATAATTGAA
*
737459 AGTTTATGTATTAAAAT-AGATCAAAACTTAG
1 AGTTTATGTACTAAAATAAG-TCAAAACTTAG
737490 AGTTTATGTACTAAAATAAGTCAAAACTTA
1 AGTTTATGTACTAAAATAAGTCAAAACTTA
737520 CCATCTATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.34
Consensus pattern (31 bp):
AGTTTATGTACTAAAATAAGTCAAAACTTAG
Found at i:737529 original size:31 final size:31
Alignment explanation
Indices: 737463--737535 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
737453 ATTGAAAGTT
* *
737463 TATGTATTAAAATAGATCAAAACTTAGAGTT
1 TATGTATTAAAATAGATCAAAACTTACAGTC
*
737494 TATGTACTAAAATA-AGTCAAAACTTACCA-TC
1 TATGTATTAAAATAGA-TCAAAACTTA-CAGTC
737525 TATGTATTAAA
1 TATGTATTAAA
737536 TGTGTAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 1 0.03
31 34 0.94
32 1 0.03
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (31 bp):
TATGTATTAAAATAGATCAAAACTTACAGTC
Found at i:740345 original size:16 final size:16
Alignment explanation
Indices: 740324--740357 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
740314 CATACCACGT
740324 ATATATACTTTTAAAA
1 ATATATACTTTTAAAA
**
740340 ATATATTTTTTTAAAA
1 ATATATACTTTTAAAA
740356 AT
1 AT
740358 TGAATTTGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATATACTTTTAAAA
Found at i:763695 original size:21 final size:21
Alignment explanation
Indices: 763638--763695 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
763628 GTTTCCAGAT
**
763638 TCGCAACGCGAACATCGACTA
1 TCGCAACGCGAATTTCGACTA
763659 TCGCAACGCGAATTTCGACTA
1 TCGCAACGCGAATTTCGACTA
* *
763680 TCGCAATGCGATTTTC
1 TCGCAACGCGAATTTC
763696 CAAATTCGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (21 bp):
TCGCAACGCGAATTTCGACTA
Found at i:763769 original size:42 final size:41
Alignment explanation
Indices: 763686--764011 Score: 362
Period size: 42 Copynumber: 7.8 Consensus size: 41
763676 ACTATCGCAA
*
763686 TGCGA-TT-TTCCAAATTCGTTGCGATAGTCCAAGTTCGCGT
1 TGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTTC-CGT
* *
763726 TGCGATTTATTCTAAATTCGCGTTGCGATAGTCCAAGTT-CGT
1 TGCGATTTATTCCAAGTT--CGTTGCGATAGTCCAAGTTCCGT
* * * * *
763768 TGCGA--TAGTCGAAGTTCGCGTTGTGATTTATTCCAAATT-CGT
1 TGCGATTTATTCCAAGTT--CGTTGCGA--TAGTCCAAGTTCCGT
* *
763810 TGCGA--TAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAGTT--CGTTGCGATAGTCCAAGTTC-CGT
*
763852 TGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTTC-CGT
*
763894 TGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTTC-CGT
*
763936 TGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTTC-CGT
763978 TGCGATTTATTCCAAGTTCGTTGCGATAGTCCAA
1 TGCGATTTATTCCAAGTTCGTTGCGATAGTCCAA
764012 AATCGCAACG
Statistics
Matches: 262, Mismatches: 14, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
40 30 0.11
41 2 0.01
42 201 0.77
44 29 0.11
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (41 bp):
TGCGATTTATTCCAAGTTCGTTGCGATAGTCCAAGTTCCGT
Found at i:763785 original size:63 final size:61
Alignment explanation
Indices: 763694--764011 Score: 392
Period size: 63 Copynumber: 5.1 Consensus size: 61
763684 AATGCGATTT
* * * *
763694 TCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCTAAATTCGCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT--CGTTGCGATAG
* *
763757 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGTGATTTATTCCAAATTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
763818 TCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
1 TCCAAGTT--CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
* * * * *
763881 TCGAAGTTCGCGTTGCGATTTATTCCAAGTT--CGTTGCGA--TAGTCGAAGTTCGCGTTGCGAT
1 TCCAAGTT--CGTTGCGA--TAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT--CGTTGCGA-
*
763942 TTAT
59 -TAG
763946 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
764007 TCCAA
1 TCCAA
764012 AATCGCAACG
Statistics
Matches: 225, Mismatches: 18, Indels: 26
0.84 0.07 0.10
Matches are distributed among these distances:
61 44 0.20
63 154 0.68
65 27 0.12
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (61 bp):
TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
Found at i:763827 original size:105 final size:105
Alignment explanation
Indices: 763686--763983 Score: 437
Period size: 105 Copynumber: 2.9 Consensus size: 105
763676 ACTATCGCAA
* *
763686 TGCGA-TT-TTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCTAAATTCGCGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGCGT
763749 TGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGT
66 TGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGT
* * *
763789 TGTGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGA--TAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGCGT
*
763852 TGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGT
66 TGCGA--TAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGT
* *
763894 TGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT--CGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGCGT
*
763957 TGCGATAGTCGAAGTTCGCGTTGCGAT
66 TGCGATAGTCCAAGTT--CGTTGCGAT
763984 TTATTCCAAG
Statistics
Matches: 175, Mismatches: 12, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
103 31 0.18
104 2 0.01
105 133 0.76
107 9 0.05
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (105 bp):
TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCGCGT
TGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGT
Found at i:766014 original size:39 final size:39
Alignment explanation
Indices: 765970--766061 Score: 103
Period size: 39 Copynumber: 2.4 Consensus size: 39
765960 AATTAAAAGA
* * *
765970 AATAATTTAGATTGTTAAGATGAAATAGTTTAAGAAACT
1 AATAATTTAGAATGTTAAGATAAAATAATTTAAGAAACT
* ** * *
766009 AATAATTTAAAATGTTGTGGTAAAATAATTTAAGAAATT
1 AATAATTTAGAATGTTAAGATAAAATAATTTAAGAAACT
*
766048 AAGAATTTAGAATG
1 AATAATTTAGAATG
766062 CTATTGTGAA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.48, C:0.01, G:0.15, T:0.36
Consensus pattern (39 bp):
AATAATTTAGAATGTTAAGATAAAATAATTTAAGAAACT
Found at i:766074 original size:39 final size:39
Alignment explanation
Indices: 765990--766091 Score: 107
Period size: 39 Copynumber: 2.6 Consensus size: 39
765980 ATTGTTAAGA
* * * * *
765990 TGAAATAGTTTAAGAAACTAATAATTTAAAATGTTGTGG
1 TGAAATAATTTAAGAAATTAAGAATTTAAAATGCTATGG
* * *
766029 TAAAATAATTTAAGAAATTAAGAATTTAGAATGCTATTG
1 TGAAATAATTTAAGAAATTAAGAATTTAAAATGCTATGG
* *
766068 TGAAATAATTTTAG-AATTAGGAAT
1 TGAAATAATTTAAGAAATTAAGAAT
766092 GAAATTTTTT
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
38 9 0.17
39 43 0.83
ACGTcount: A:0.46, C:0.02, G:0.16, T:0.36
Consensus pattern (39 bp):
TGAAATAATTTAAGAAATTAAGAATTTAAAATGCTATGG
Found at i:768004 original size:22 final size:21
Alignment explanation
Indices: 767970--768010 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
767960 ATAATTATTT
767970 AAAAAATTAAATAAAAATACC
1 AAAAAATTAAATAAAAATACC
*
767991 AAAAATATTTAATAAAAATA
1 AAAAA-ATTAAATAAAAATA
768011 ATTTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATACC
Found at i:770316 original size:24 final size:24
Alignment explanation
Indices: 770276--770337 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
770266 CATAGGTCTC
*
770276 GTTCGTTCAT-TTACGTTC-GTGAAT
1 GTTCGTTTATGTT-CGTTCGGT-AAT
*
770300 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTAAT
770324 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
770338 ATTCATTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 30 0.88
25 4 0.12
ACGTcount: A:0.11, C:0.15, G:0.23, T:0.52
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGGTAAT
Found at i:770317 original size:14 final size:14
Alignment explanation
Indices: 770300--770330 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
770290 GTTCGTGAAT
*
770300 GTTCGTTTATGTTC
1 GTTCGGTTATGTTC
770314 GTTCGGTTATGTTC
1 GTTCGGTTATGTTC
770328 GTT
1 GTT
770331 TATGTTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.06, C:0.13, G:0.26, T:0.55
Consensus pattern (14 bp):
GTTCGGTTATGTTC
Found at i:770347 original size:24 final size:24
Alignment explanation
Indices: 770298--770350 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
770288 ACGTTCGTGA
* *
770298 ATGTTCGTTTATGTTCGTTCGGTT
1 ATGTTCGTTTATGTTCATTCAGTT
*
770322 ATGTTCGTTTATGTTCATTCATTT
1 ATGTTCGTTTATGTTCATTCAGTT
770346 ATGTT
1 ATGTT
770351 TAACCCAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.13, C:0.11, G:0.19, T:0.57
Consensus pattern (24 bp):
ATGTTCGTTTATGTTCATTCAGTT
Found at i:770823 original size:16 final size:16
Alignment explanation
Indices: 770802--770868 Score: 84
Period size: 16 Copynumber: 4.3 Consensus size: 16
770792 GTCTCCAACG
770802 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
* **
770818 TTTATGTTCATGTTTG
1 TTTATGTTCGTGTTCA
*
770834 TTTATGTTCGTGTTCG
1 TTTATGTTCGTGTTCA
770850 TTTATGTTCGT-TT-A
1 TTTATGTTCGTGTTCA
770864 TTTAT
1 TTTAT
770869 TAAATGAACG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 5 0.11
15 2 0.04
16 38 0.84
ACGTcount: A:0.12, C:0.09, G:0.18, T:0.61
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:771773 original size:18 final size:19
Alignment explanation
Indices: 771720--771774 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
771710 TGGTAATTTA
**
771720 AAAAATATTAAAAAAACT-T
1 AAAAATATTAAAATTA-TAT
* *
771739 AAAAATATTATATTTATAT
1 AAAAATATTAAAATTATAT
771758 AAAAAT-TTAAAATTATA
1 AAAAATATTAAAATTATA
771775 AATTTAACCC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
18 10 0.34
19 19 0.66
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATATTAAAATTATAT
Found at i:771959 original size:21 final size:21
Alignment explanation
Indices: 771930--771969 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
771920 TGTCTAATTA
*
771930 CTAAATCCCTAATCATAAATC
1 CTAAATCCCAAATCATAAATC
* *
771951 CTAATTCCCAAATTATAAA
1 CTAAATCCCAAATCATAAA
771970 ATTCTTAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (21 bp):
CTAAATCCCAAATCATAAATC
Found at i:789302 original size:26 final size:27
Alignment explanation
Indices: 789273--789323 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
789263 AACATACATA
*
789273 AATACAATTATT-TAAACTCAAGGGTT
1 AATACAAATATTATAAACTCAAGGGTT
* *
789299 AATATAAATATTATGAACTCAAGGG
1 AATACAAATATTATAAACTCAAGGG
789324 AATCTCATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 10 0.48
27 11 0.52
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (27 bp):
AATACAAATATTATAAACTCAAGGGTT
Found at i:789891 original size:20 final size:20
Alignment explanation
Indices: 789853--789892 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
789843 TAATCCTATT
* **
789853 CACTGGTAATCTTTTATTCC
1 CACTAGTAATCTTACATTCC
789873 CACTAGTAATCTTACATTCC
1 CACTAGTAATCTTACATTCC
789893 GTGAACCAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.07, T:0.40
Consensus pattern (20 bp):
CACTAGTAATCTTACATTCC
Found at i:789965 original size:26 final size:26
Alignment explanation
Indices: 789936--789993 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
789926 TACAACCAAG
789936 AAACCCTGGAATAGGTAAAACAAATA
1 AAACCCTGGAATAGGTAAAACAAATA
789962 AAACCCTGGAATAGGTAAAACAAATA
1 AAACCCTGGAATAGGTAAAACAAATA
789988 AAACCC
1 AAACCC
789994 ATACAGAGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.53, C:0.19, G:0.14, T:0.14
Consensus pattern (26 bp):
AAACCCTGGAATAGGTAAAACAAATA
Found at i:794611 original size:29 final size:29
Alignment explanation
Indices: 794568--794650 Score: 121
Period size: 29 Copynumber: 2.8 Consensus size: 29
794558 CTCACCTAAC
*
794568 TAAATTGATGAAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
794598 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
* *
794627 TAAATAATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
794651 ATTTAGTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 44 0.92
30 4 0.08
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:798038 original size:15 final size:15
Alignment explanation
Indices: 798018--798047 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
798008 CTTTCTCATA
798018 GTTATTGTTGGAATT
1 GTTATTGTTGGAATT
*
798033 GTTATTGTTGTAATT
1 GTTATTGTTGGAATT
798048 CCAGCCTCGT
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:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (15 bp):
GTTATTGTTGGAATT
Found at i:800040 original size:14 final size:14
Alignment explanation
Indices: 800021--800048 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
800011 ATTACTCCCC
800021 CTTACTTTAACACT
1 CTTACTTTAACACT
800035 CTTACTTTAACACT
1 CTTACTTTAACACT
800049 TCCTTCAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (14 bp):
CTTACTTTAACACT
Found at i:801904 original size:19 final size:20
Alignment explanation
Indices: 801860--801904 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
801850 TAGTTTTCAT
*
801860 AATAACAACATAATTTAATC
1 AATAACAACATAATTTAATA
801880 AA-AAC-ACAATAATTTAA-A
1 AATAACAAC-ATAATTTAATA
801898 AATAACA
1 AATAACA
801905 TTTTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
18 4 0.19
19 15 0.71
20 2 0.10
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.24
Consensus pattern (20 bp):
AATAACAACATAATTTAATA
Found at i:802330 original size:21 final size:21
Alignment explanation
Indices: 802304--802343 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
802294 CAGAACCCCA
*
802304 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
802325 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
802344 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:809005 original size:29 final size:29
Alignment explanation
Indices: 808962--809044 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
808952 CTCACCTAAC
808962 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
808992 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
809021 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
809045 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:814442 original size:45 final size:48
Alignment explanation
Indices: 814381--814484 Score: 135
Period size: 49 Copynumber: 2.2 Consensus size: 48
814371 CGCGGATCAT
814381 GTACCGCG-CTATACCTTTA-CT-GCATAATTTTATATAGC-GGGGCAG
1 GTACCGCGAC-ATACCTTTACCTGGCATAATTTTATATAGCGGGGGCAG
*
814426 GTATCGCGACATACCTTTACTCCTGGCATAATTTTATATAGCGTGGGGCAG
1 GTACCGCGACATACCTTTA--CCTGGCATAATTTTATATAGCG-GGGGCAG
814477 GTACCGCG
1 GTACCGCG
814485 TTTTGTATAA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
45 16 0.32
46 1 0.02
48 2 0.04
49 17 0.34
51 14 0.28
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (48 bp):
GTACCGCGACATACCTTTACCTGGCATAATTTTATATAGCGGGGGCAG
Found at i:820332 original size:110 final size:111
Alignment explanation
Indices: 820138--820358 Score: 363
Period size: 110 Copynumber: 2.0 Consensus size: 111
820128 ATTACAAAAA
* * * *
820138 TTAATTCTTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTAATAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
* *
820203 AATTAAAACGTTAAAATGTTACCGTATTAACAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTAGAGATAT
*
820249 TTAATTATTAATATAATAATCATGCATTAAATAAAT-AACTAAATATTACTAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
*
820313 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTAGAGATAT
820359 ATGATTTCCA
Statistics
Matches: 102, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
110 69 0.68
111 33 0.32
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTAGAGATAT
Found at i:820698 original size:50 final size:50
Alignment explanation
Indices: 820644--820769 Score: 164
Period size: 50 Copynumber: 2.5 Consensus size: 50
820634 AAATATACAG
* * *
820644 GTATAGCGCGCTGCAGGGGCCGCGCTATA-CCCACGTGGCGCCAGCTCACC
1 GTATAGAGCGGTGCAGGGG-CGCGCTATACCCCACGTGGCGCCAGATCACC
* * *
820694 GTATAGAGCGGTGCAGGGGCACGCTATACCCCACGTGGCGCCATATCATC
1 GTATAGAGCGGTGCAGGGGCGCGCTATACCCCACGTGGCGCCAGATCACC
*
820744 GTATAGAGCGGTACAGGGGACGCGCT
1 GTATAGAGCGGTGCAGGGG-CGCGCT
820770 TTACTGCTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
49 8 0.12
50 53 0.80
51 5 0.08
ACGTcount: A:0.20, C:0.31, G:0.33, T:0.16
Consensus pattern (50 bp):
GTATAGAGCGGTGCAGGGGCGCGCTATACCCCACGTGGCGCCAGATCACC
Found at i:821671 original size:20 final size:20
Alignment explanation
Indices: 821642--821682 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
821632 GGAGGAAGAT
*
821642 GATGCTACTAGTGCATTAAA
1 GATGCCACTAGTGCATTAAA
821662 GATGCCACTAGTGCATTAAA
1 GATGCCACTAGTGCATTAAA
821682 G
1 G
821683 GGGCCACCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (20 bp):
GATGCCACTAGTGCATTAAA
Found at i:821688 original size:20 final size:20
Alignment explanation
Indices: 821648--821695 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
821638 AGATGATGCT
*
821648 ACTAGTGCATTAAAGATGCC
1 ACTAGTGCATTAAAGAGGCC
*
821668 ACTAGTGCATTAAAGGGGCC
1 ACTAGTGCATTAAAGAGGCC
*
821688 ACCAGTGC
1 ACTAGTGC
821696 TGAAGCCTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (20 bp):
ACTAGTGCATTAAAGAGGCC
Found at i:826200 original size:5 final size:5
Alignment explanation
Indices: 826190--826218 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
826180 AGAAAGGATG
826190 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
826219 TGTATGTCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:827010 original size:24 final size:25
Alignment explanation
Indices: 826969--827017 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
826959 TTTATGTTTT
*
826969 TACACGTTTTTCTATGTTCTTGTGG
1 TACACGTTTTTCTATGTTCATGTGG
*
826994 TACACGTTTTT-TCTGTTCATGTGG
1 TACACGTTTTTCTATGTTCATGTGG
827018 CACGATCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.12, C:0.16, G:0.20, T:0.51
Consensus pattern (25 bp):
TACACGTTTTTCTATGTTCATGTGG
Found at i:830252 original size:128 final size:128
Alignment explanation
Indices: 829993--830299 Score: 420
Period size: 128 Copynumber: 2.4 Consensus size: 128
829983 TGTAAAATAA
* * * *
829993 AAACGCCGCAAAAAGTCAAGATCTATAGCGGCGTTTGTTTTAA-AAACGCCGCAAAAGGTCAGAT
1 AAACGCCGCAAAAAGTC-AGATCTATAGCGGCATTT-TTGTAACAAACGCCACAAAAGGACAGAT
* * * *
830057 CTATTGCGGCATTTCTGGATACAAACGCCGCAAAAGGATGAAATCTATAGCGGCGTTTTTTGAAC
64 CTATAGAGGCATTTCTGGATACAAACGCCGCAAAAGGATCAAATCTATAGCGGCGTGTTTTGAAC
*
830122 AAACGCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGTAACAAACGCCACAAAAGGACAGATCT
1 AAACGCCGCAAAAAGTCAGATCTATAGCGGCATTTTTGTAACAAACGCCACAAAAGGACAGATCT
* * * *
830187 ATAGAGGCGTTTTTGGATACAAACGCCGTAAAAGG-TCATATCTATAGCGGCGTGTTTTGATAC
66 ATAGAGGCATTTCTGGATACAAACGCCGCAAAAGGATCAAATCTATAGCGGCGTGTTTTGA-AC
* * *
830250 AAACGCCGCAAAATGTCAGATCTATAGCAGCATTTTTGGATACAAACGCC
1 AAACGCCGCAAAAAGTCAGATCTATAGCGGCATTTTTGTA-ACAAACGCC
830300 GCTAATTACC
Statistics
Matches: 159, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
127 27 0.17
128 107 0.67
129 25 0.16
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (128 bp):
AAACGCCGCAAAAAGTCAGATCTATAGCGGCATTTTTGTAACAAACGCCACAAAAGGACAGATCT
ATAGAGGCATTTCTGGATACAAACGCCGCAAAAGGATCAAATCTATAGCGGCGTGTTTTGAAC
Found at i:830292 original size:43 final size:43
Alignment explanation
Indices: 829993--830301 Score: 376
Period size: 43 Copynumber: 7.2 Consensus size: 43
829983 TGTAAAATAA
* * *
829993 AAACGCCGCAAAAAGTCAAGATCTATAGCGGCGTTTGTT--TTAA
1 AAACGCCGCAAAAGGTC-AGATCTATAGCGGCGTTT-TTGGATAC
* * *
830036 AAACGCCGCAAAAGGTCAGATCTATTGCGGCATTTCTGGATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGATAC
* * *
830079 AAACGCCGCAAAAGGATGAAATCTATAGCGGCGTTTTTTGA-AC
1 AAACGCCGCAAAAGG-TCAGATCTATAGCGGCGTTTTTGGATAC
* *
830122 AAACGCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGTA-AC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGATAC
* * *
830164 AAACGCCACAAAAGGACAGATCTATAGAGGCGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGATAC
* *
830207 AAACGCCGTAAAAGGTCATATCTATAGCGGCGTGTTTT-GATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGT-TTTTGGATAC
* * *
830250 AAACGCCGCAAAATGTCAGATCTATAGCAGCATTTTTGGATAC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGATAC
830293 AAACGCCGC
1 AAACGCCGC
830302 TAATTACCAT
Statistics
Matches: 228, Mismatches: 32, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.00
42 77 0.34
43 127 0.56
44 23 0.10
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (43 bp):
AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGATAC
Found at i:833188 original size:33 final size:33
Alignment explanation
Indices: 833149--833221 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
833139 AGCCACTGTA
833149 CAAAATCCAAAGCAGAACCCAAAGCCACGAAAT
1 CAAAATCCAAAGCAGAACCCAAAGCCACGAAAT
833182 CAAAATCCAAAGCAGAACCCAAAGCCACGAAAT
1 CAAAATCCAAAGCAGAACCCAAAGCCACGAAAT
*
833215 TAAAATC
1 CAAAATC
833222 AAAATCAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.52, C:0.29, G:0.11, T:0.08
Consensus pattern (33 bp):
CAAAATCCAAAGCAGAACCCAAAGCCACGAAAT
Found at i:833532 original size:41 final size:41
Alignment explanation
Indices: 833460--833591 Score: 162
Period size: 41 Copynumber: 3.2 Consensus size: 41
833450 TCAAACGCCA
* *
833460 CTAAAGTACGAGTCTATAGTGGC-GTTCGTATAAAAATGTCG
1 CTAAAGTACAAGTCTATAGCGGCGGTT-GTATAAAAATGTCG
* *
833501 CTAACA-TACAAGTGTATAGCGGCGGTTGTATAAAAATG-CAA
1 CTAA-AGTACAAGTCTATAGCGGCGGTTGTATAAAAATGTC-G
* *
833542 CTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGTCG
1 CTAAAGTACAAGTCTATAGCGGCGGTTGTATAAAAATGTCG
833583 CTAAAGTAC
1 CTAAAGTAC
833592 TACTCTGTTA
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
40 2 0.03
41 71 0.91
42 5 0.06
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.27
Consensus pattern (41 bp):
CTAAAGTACAAGTCTATAGCGGCGGTTGTATAAAAATGTCG
Found at i:833618 original size:82 final size:83
Alignment explanation
Indices: 833452--833676 Score: 194
Period size: 82 Copynumber: 2.7 Consensus size: 83
833442 TTGTAAACTC
* * * * *
833452 AAACGCCACTAAAGTACGAGTCTATAGTGGCGTTCGTATAAAAATGTCGCTAACA-TACAAGTGT
1 AAACGCAACTAAAGTACAAGTCTATAGTGGCGTTTGTATAAAAACGTCGCTAA-AGTACAACTGT
*
833516 ATAGCGGCGGTTGT-ATAA
65 ATAGCGACGGTTGTAATAA
* * *
833534 AAATGCAACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGTCGCTAAAGTACTACTCTG
1 AAACGCAACTAAAGTACAAGTCTATAGTGGCGTTTGTATAAAAACGTCGCTAAAGTAC-A-ACTG
* *
833599 T-TA-CGATGTTTGTTAA-AA
64 TATAGCGACGGTTG-TAATAA
* * * * * *
833617 AAACGCCACTATAG-ATGAA-CCTATTGTGGCGTTTGTATAAAAACGCCGCTAAAGTTACAA
1 AAACGCAACTAAAGTA-CAAGTCTATAGTGGCGTTTGTATAAAAACGTCGCTAAAG-TACAA
833677 TTTTGTGGCA
Statistics
Matches: 116, Mismatches: 20, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
81 1 0.01
82 89 0.77
83 22 0.19
84 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (83 bp):
AAACGCAACTAAAGTACAAGTCTATAGTGGCGTTTGTATAAAAACGTCGCTAAAGTACAACTGTA
TAGCGACGGTTGTAATAA
Found at i:842741 original size:35 final size:36
Alignment explanation
Indices: 842690--842766 Score: 104
Period size: 35 Copynumber: 2.2 Consensus size: 36
842680 AACACAATCC
*
842690 TCAATTTTATTCTAAAC-CCTAAATTCT-AAAATAAT
1 TCAATTATATTCTAAACTCC-AAATTCTAAAAATAAT
* *
842725 TCAATTATATTTTAAACTCCAAATTCTAAAAATACT
1 TCAATTATATTCTAAACTCCAAATTCTAAAAATAAT
842761 TCAATT
1 TCAATT
842767 TAGGGTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 22 0.59
36 15 0.41
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (36 bp):
TCAATTATATTCTAAACTCCAAATTCTAAAAATAAT
Found at i:857082 original size:21 final size:20
Alignment explanation
Indices: 856996--857153 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
856986 AAATGACCAA
**
856996 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
857015 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
857035 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
857055 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
857076 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
857097 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
857117 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
857138 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
857154 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:857296 original size:20 final size:20
Alignment explanation
Indices: 857120--857309 Score: 195
Period size: 20 Copynumber: 9.5 Consensus size: 20
857110 CGATTTTCCA
* ** *
857120 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
857140 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
*
857160 AAATCGCAACTCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
857180 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
857200 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
857220 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
857240 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
857260 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
857280 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
857300 AAATCACAAC
1 AAATCGCAAC
857310 ACTGAAATTT
Statistics
Matches: 142, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
19 2 0.01
20 138 0.97
21 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:860534 original size:19 final size:19
Alignment explanation
Indices: 860512--860780 Score: 291
Period size: 19 Copynumber: 15.4 Consensus size: 19
860502 CGGAAATTAC
*
860512 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
860531 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
860545 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
860565 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
860579 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
860598 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
860617 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
860631 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
860650 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
860669 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
860683 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
860702 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
860721 AATCGCAA----AGA-GAG
1 AATCGCAATGCGAAATGAA
860735 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
860754 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
860773 AATCGCAA
1 AATCGCAA
860781 CGAGAGAATC
Statistics
Matches: 212, Mismatches: 12, Indels: 52
0.77 0.04 0.19
Matches are distributed among these distances:
14 52 0.25
15 5 0.02
16 7 0.03
17 6 0.03
18 6 0.03
19 123 0.58
20 13 0.06
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:860599 original size:33 final size:33
Alignment explanation
Indices: 860512--860802 Score: 242
Period size: 33 Copynumber: 8.5 Consensus size: 33
860502 CGGAAATTAC
* *
860512 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAA
*
860545 AATCGCAATGCGGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAA
860579 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
*
860617 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
*
860650 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
* *
860683 AATCGCAATGCGAAATGAAAATCGCAATGCG-A
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
*
860715 AAT-GAAAAT-CGCAAA-GAGAGAATCGCAATGCGAAATGAA
1 AATCG-CAATGCG-AAATGA-A-AATCGCAA--CG--A-GAA
*
860754 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
860787 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
860803 TATAAACGCA
Statistics
Matches: 218, Mismatches: 15, Indels: 50
0.77 0.05 0.18
Matches are distributed among these distances:
31 5 0.02
32 10 0.05
33 112 0.51
34 32 0.15
35 6 0.03
36 6 0.03
37 2 0.01
38 29 0.13
39 11 0.05
40 5 0.02
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAA
Found at i:860627 original size:52 final size:52
Alignment explanation
Indices: 860540--860802 Score: 508
Period size: 52 Copynumber: 5.0 Consensus size: 52
860530 AAATCCCAAC
860540 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
860593 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
860645 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
860697 ATGAAAATCGCAATGCGAAATGAAAATCGCAAAGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
860749 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
860801 AT
1 AT
860803 TATAAACGCA
Statistics
Matches: 208, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
52 192 0.92
53 16 0.08
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:860867 original size:19 final size:19
Alignment explanation
Indices: 860827--860924 Score: 125
Period size: 19 Copynumber: 5.4 Consensus size: 19
860817 GATTCTCTCG
860827 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
* *
860847 TTGCGATTATAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
860866 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
860880 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
860899 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
860918 TTGCGAT
1 TTGCGAT
860925 AGTCATTTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
14 6 0.09
16 7 0.10
17 5 0.07
19 36 0.54
20 13 0.19
ACGTcount: A:0.16, C:0.21, G:0.17, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:860921 original size:52 final size:53
Alignment explanation
Indices: 860809--860924 Score: 198
Period size: 53 Copynumber: 2.2 Consensus size: 53
860799 AAATTATAAA
*
860809 CGCATTACGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTATAATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTATAATTT
* *
860862 CGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTT
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTATAATTT
860914 CGCATTGCGAT
1 CGCATTGCGAT
860925 AGTCATTTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
52 28 0.47
53 32 0.53
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.43
Consensus pattern (53 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTATAATTT
Found at i:861050 original size:14 final size:14
Alignment explanation
Indices: 861031--861067 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
861021 CTTCAATTAC
861031 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
861045 ACAAATCATCTTTT
1 ACAAATCAACTTTT
861059 ACAAATCAA
1 ACAAATCAA
861068 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:861877 original size:19 final size:18
Alignment explanation
Indices: 861861--861958 Score: 105
Period size: 19 Copynumber: 5.4 Consensus size: 18
861851 AAAAATGACT
861861 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG-AA
861880 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG-AA
*
861899 ATCGCAA--CGAGA-G-A
1 ATCGCAATGCGAAATGAA
*
861913 ATCGCAATGCGAAATTATA
1 ATCGCAATGCGAAATGA-A
861932 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATG-AA
861952 ATCGCAA
1 ATCGCAA
861959 CGAGAGAATC
Statistics
Matches: 68, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
14 8 0.12
16 5 0.07
17 4 0.06
19 37 0.54
20 13 0.19
21 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.16
Consensus pattern (18 bp):
ATCGCAATGCGAAATGAA
Found at i:861939 original size:52 final size:53
Alignment explanation
Indices: 861861--861976 Score: 207
Period size: 53 Copynumber: 2.2 Consensus size: 53
861851 AAAAATGACT
861861 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
* *
861913 ATCGCAATGCGAAATTATAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
861966 ATCGCAATGCG
1 ATCGCAATGCG
861977 TTTATAATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 27 0.44
53 34 0.56
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:862029 original size:19 final size:19
Alignment explanation
Indices: 862005--862225 Score: 283
Period size: 19 Copynumber: 12.4 Consensus size: 19
861995 GATTCTCTCG
862005 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
862024 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
862043 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
862062 TTGCGA--TTC---TCTCT
1 TTGCGATTTTCATTTCGCA
862076 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
862095 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
862114 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
862128 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
862147 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
862166 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
862180 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
862199 TTGCGATTTTCATATCGCG
1 TTGCGATTTTCATTTCGCA
862218 TTGCGATT
1 TTGCGATT
862226 CTCTCGTTGC
Statistics
Matches: 177, Mismatches: 10, Indels: 30
0.82 0.05 0.14
Matches are distributed among these distances:
14 21 0.12
16 17 0.10
17 17 0.10
19 122 0.69
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:862040 original size:52 final size:52
Alignment explanation
Indices: 862024--862247 Score: 421
Period size: 52 Copynumber: 4.3 Consensus size: 52
862014 TCATTTCGCA
*
862024 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
862076 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
862128 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
* *
862180 TTGCGATTTTCATTTCGCATTGCGATTTTCATATCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
862232 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
862248 TCTCGTTGCA
Statistics
Matches: 169, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 169 1.00
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:862058 original size:71 final size:71
Alignment explanation
Indices: 861983--862206 Score: 302
Period size: 71 Copynumber: 3.2 Consensus size: 71
861973 TGCGTTTATA
*
861983 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTCTCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
862048 ATTTTC
66 ATTTTC
*
862054 ATTTCGCATTGCGATTCTCTCTTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTCTCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
862119 ATTCTCTC
66 ATT-T-TC
* * * * *
862127 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGC
1 ATTTCGCA-TTGCGATTCTCTCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
862184 GATTTTC
65 GATTTTC
862191 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
862207 TTCATATCGC
Statistics
Matches: 138, Mismatches: 10, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
64 9 0.07
65 5 0.04
66 8 0.06
68 4 0.03
69 3 0.02
71 95 0.69
72 5 0.04
73 9 0.07
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (71 bp):
ATTTCGCATTGCGATTCTCTCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
ATTTTC
Found at i:862250 original size:21 final size:21
Alignment explanation
Indices: 862224--862299 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
862214 CGCGTTGCGA
862224 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
* ***
862245 TTCTCTCGTTGCAACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
862265 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
862286 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
862300 CTCTTCTGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.13, C:0.25, G:0.16, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:862421 original size:33 final size:33
Alignment explanation
Indices: 862379--862449 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
862369 AATACTAACT
*
862379 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
862412 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
862445 TGAAA
1 TGAAA
862450 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:862683 original size:22 final size:22
Alignment explanation
Indices: 862631--862685 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
862621 TGGTTGTGAG
**
862631 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
862653 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
862675 GGATTTCTTCG
1 GGATTTCTTCG
862686 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:862857 original size:20 final size:20
Alignment explanation
Indices: 862832--863025 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
862822 CTTTAAATAT
862832 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
862852 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
862874 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
862893 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
862913 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
862933 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
862953 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
862973 CGAGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
862993 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
863013 CGCGTTGCGATTT
1 CGCGTTGCGATTT
863026 TGGAAAATCG
Statistics
Matches: 145, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:863019 original size:60 final size:60
Alignment explanation
Indices: 862832--863025 Score: 237
Period size: 60 Copynumber: 3.2 Consensus size: 60
862822 CTTTAAATAT
* **
862832 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGAGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* *** *
862893 CGCGTTGCGATATACGGATACGCA-TTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACG-AGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
862953 CACGTTGCGATTTACGGATACGAGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGAGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
863013 CGCGTTGCGATTT
1 CGCGTTGCGATTT
863026 TGGAAAATCG
Statistics
Matches: 111, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
59 1 0.01
60 83 0.75
61 27 0.24
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGAGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:863042 original size:21 final size:21
Alignment explanation
Indices: 863012--863094 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
863002 ATTTTCATAT
*
863012 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
863033 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
863054 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
863075 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
863095 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:863085 original size:42 final size:43
Alignment explanation
Indices: 862992--863090 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
862982 ATTTATGTGT
* *
862992 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
863033 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
863075 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
863091 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:864172 original size:42 final size:42
Alignment explanation
Indices: 864113--864202 Score: 180
Period size: 42 Copynumber: 2.1 Consensus size: 42
864103 CAGCTGGCAT
864113 ATGTACCAACACAGGCAACAGCAAAATAAACATAGAGATGTA
1 ATGTACCAACACAGGCAACAGCAAAATAAACATAGAGATGTA
864155 ATGTACCAACACAGGCAACAGCAAAATAAACATAGAGATGTA
1 ATGTACCAACACAGGCAACAGCAAAATAAACATAGAGATGTA
864197 ATGTAC
1 ATGTAC
864203 TCGTCTCCAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.49, C:0.19, G:0.17, T:0.16
Consensus pattern (42 bp):
ATGTACCAACACAGGCAACAGCAAAATAAACATAGAGATGTA
Found at i:865890 original size:35 final size:34
Alignment explanation
Indices: 865835--865928 Score: 134
Period size: 35 Copynumber: 2.7 Consensus size: 34
865825 AATGGGTTAT
* * *
865835 GAATTTGGGGTTGGACATGTAATTGAAGTATTTTG
1 GAATTTGGGTTTAGA-ATGTAATTGAAGCATTTTG
865870 GAATTTGAGGTTTAGAATGTAATTGAAGCATTTTG
1 GAATTTG-GGTTTAGAATGTAATTGAAGCATTTTG
*
865905 GATTTTGGGTTTAGAATGTAATTG
1 GAATTTGGGTTTAGAATGTAATTG
865929 GTGAGTGTGT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
34 17 0.31
35 31 0.57
36 6 0.11
ACGTcount: A:0.28, C:0.02, G:0.29, T:0.41
Consensus pattern (34 bp):
GAATTTGGGTTTAGAATGTAATTGAAGCATTTTG
Found at i:875291 original size:26 final size:24
Alignment explanation
Indices: 875249--875304 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
875239 ATGTTATTAA
* * *
875249 AAATGTTTAAAATTTATGTATTTT
1 AAATATTTAAAATTTATATATTTC
875273 AAATATTTAAAACTATTATATATTTC
1 AAATATTTAAAA-T-TTATATATTTC
875299 AAATAT
1 AAATAT
875305 GTTATATGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 11 0.41
25 1 0.04
26 15 0.56
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (24 bp):
AAATATTTAAAATTTATATATTTC
Found at i:881772 original size:16 final size:15
Alignment explanation
Indices: 881737--881769 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
881727 AATGATGATG
*
881737 ATAA-TAAAAAATTT
1 ATAATTAAAAAAATT
881751 ATAATTAAAAAAATT
1 ATAATTAAAAAAATT
881766 ATAA
1 ATAA
881770 ATTTTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATTAAAAAAATT
Found at i:881923 original size:10 final size:10
Alignment explanation
Indices: 881908--881965 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
881898 TCTCTTTTTT
881908 TAAAAATCAA
1 TAAAAATCAA
*
881918 TAAAAATGTAA
1 TAAAAAT-CAA
*
881929 TAAAAAACAA
1 TAAAAATCAA
* *
881939 TTAAAAGTGAA
1 -TAAAAATCAA
*
881950 TAAAATTCAA
1 TAAAAATCAA
881960 TAAAAA
1 TAAAAA
881966 AGAATATAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
10 22 0.59
11 15 0.41
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.22
Consensus pattern (10 bp):
TAAAAATCAA
Found at i:881934 original size:21 final size:21
Alignment explanation
Indices: 881908--881965 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
881898 TCTCTTTTTT
881908 TAAAAATCAATAAAAA-TGTAA
1 TAAAAATCAATAAAAAGTG-AA
* *
881929 TAAAAAACAATTAAAAGTGAA
1 TAAAAATCAATAAAAAGTGAA
*
881950 TAAAATTCAATAAAAA
1 TAAAAATCAATAAAAA
881966 AGAATATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.22
Consensus pattern (21 bp):
TAAAAATCAATAAAAAGTGAA
Found at i:882079 original size:25 final size:25
Alignment explanation
Indices: 882017--882081 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
882007 TTCTTTCTAA
*
882017 TATTAATTTTAAAAAATATTAAATTC
1 TATTAATTTT-AAAAATAATAAATTC
882043 TAATT--TTATTAAAAATAATAAACTT-
1 T-ATTAATT-TTAAAAATAATAAA-TTC
882068 TATTAATTTTAAAA
1 TATTAATTTTAAAA
882082 GTTTATTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
24 3 0.09
25 20 0.61
26 7 0.21
27 3 0.09
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (25 bp):
TATTAATTTTAAAAATAATAAATTC
Found at i:882384 original size:11 final size:11
Alignment explanation
Indices: 882363--882402 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
882353 TCATTTTTTT
882363 TAAAAAT-CAA
1 TAAAAATGCAA
882373 TAAAAATGCAA
1 TAAAAATGCAA
882384 TAAAAATG-AA
1 TAAAAATGCAA
882394 TTAAAAATG
1 -TAAAAATG
882403 AGTAGAATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (11 bp):
TAAAAATGCAA
Found at i:882461 original size:26 final size:26
Alignment explanation
Indices: 882425--882490 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
882415 TACAAAAAGA
882425 ATAT-AAA-TTATTATTTTCAAAAAT
1 ATATAAAATTTATTATTTTCAAAAAT
* ** *
882449 ATATAAAATTTATAATTTTTTAAATT
1 ATATAAAATTTATTATTTTCAAAAAT
882475 ATA-AAATATTTATTAT
1 ATATAAA-ATTTATTAT
882491 CATCATCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 4 0.12
25 6 0.18
26 24 0.71
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (26 bp):
ATATAAAATTTATTATTTTCAAAAAT
Found at i:884984 original size:23 final size:23
Alignment explanation
Indices: 884941--885042 Score: 70
Period size: 23 Copynumber: 4.3 Consensus size: 23
884931 TAATTATTAA
* *
884941 AATATTTAAAAT-ATAT-TTATT
1 AATATTTATAATAATATAATATT
884962 AATATTTATAATAATATAATATT
1 AATATTTATAATAATATAATATT
*
884985 ATATTTTTAGTTTAATAATATAATCAATT
1 A-ATATTTA---TAATAATATAAT--ATT
885014 -ATA-TTATAATAATATGAGATATT
1 AATATTTATAATAATAT-A-ATATT
885037 -ATATTT
1 AATATTT
885043 TTTTATTTTA
Statistics
Matches: 66, Mismatches: 4, Indels: 19
0.74 0.04 0.21
Matches are distributed among these distances:
21 11 0.17
22 4 0.06
23 20 0.30
24 9 0.14
25 2 0.03
26 3 0.05
27 14 0.21
29 3 0.05
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (23 bp):
AATATTTATAATAATATAATATT
Found at i:884986 original size:26 final size:24
Alignment explanation
Indices: 884933--884986 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 24
884923 CAAATTATTA
884933 ATTATTAAAATATTTAAAATATAT
1 ATTATTAAAATATTTAAAATATAT
*
884957 -TTATTAATAT-TTATAATAATATAAT
1 ATTATTAAAATATT-TAA-AATAT-AT
884982 ATTAT
1 ATTAT
884987 ATTTTTAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
22 2 0.08
23 12 0.48
24 5 0.20
25 2 0.08
26 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTATTAAAATATTTAAAATATAT
Found at i:885071 original size:28 final size:28
Alignment explanation
Indices: 885012--885109 Score: 92
Period size: 28 Copynumber: 3.4 Consensus size: 28
885002 ATATAATCAA
* *
885012 TTATATTATAATAATATGAGATATTATATTTT
1 TTATATT-TAAT-A-ATGA-ATAATATTTTTT
885044 TT-TATTTTAATAAT-ATATAATATTTTTT
1 TTATA-TTTAATAATGA-ATAATATTTTTT
*
885072 TTATATTTAATAATGAATAATATTATTT
1 TTATATTTAATAATGAATAATATTTTTT
*
885100 ATATATTTAA
1 TTATATTTAA
885110 AACATATACT
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
28 42 0.72
29 5 0.09
30 1 0.02
31 6 0.10
32 4 0.07
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (28 bp):
TTATATTTAATAATGAATAATATTTTTT
Found at i:885143 original size:23 final size:23
Alignment explanation
Indices: 885102--885163 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
885092 TATTATTTAT
*
885102 ATATTTAAAACATATACTAGTAAAG
1 ATATTT-AAA-ATATACTAATAAAG
* *
885127 ATATTTAAAATATACTAATTAAT
1 ATATTTAAAATATACTAATAAAG
*
885150 ATTTTTAAAATATA
1 ATATTTAAAATATA
885164 ATATAACACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 24 0.73
24 3 0.09
25 6 0.18
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (23 bp):
ATATTTAAAATATACTAATAAAG
Found at i:885430 original size:20 final size:20
Alignment explanation
Indices: 885405--885473 Score: 120
Period size: 20 Copynumber: 3.5 Consensus size: 20
885395 GTTTTCTAGA
885405 TATTTTTTAGAAATATAATT
1 TATTTTTTAGAAATATAATT
*
885425 TATTTTTCAGAAATATAATT
1 TATTTTTTAGAAATATAATT
*
885445 TATTTTTTAGAAATGTAATT
1 TATTTTTTAGAAATATAATT
885465 TATTTTTTA
1 TATTTTTTA
885474 TAATTCAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (20 bp):
TATTTTTTAGAAATATAATT
Found at i:885484 original size:20 final size:20
Alignment explanation
Indices: 885405--885484 Score: 83
Period size: 20 Copynumber: 4.0 Consensus size: 20
885395 GTTTTCTAGA
885405 TATTTTTTAGAAAT-ATAATT
1 TATTTTTTAGAAATCA-AATT
*
885425 TATTTTTCAGAAAT-ATAATT
1 TATTTTTTAGAAATCA-AATT
**
885445 TATTTTTTAGAAATGTAATT
1 TATTTTTTAGAAATCAAATT
* *
885465 TATTTTTTATAATTCAAATT
1 TATTTTTTAGAAATCAAATT
885485 CTAGTAATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (20 bp):
TATTTTTTAGAAATCAAATT
Found at i:885492 original size:29 final size:30
Alignment explanation
Indices: 885459--885523 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
885449 TTTTAGAAAT
885459 GTAATTTATTTTTTA-TAATTCAAATTCTA
1 GTAATTTATTTTTTAGTAATTCAAATTCTA
*
885488 GTAATTTATTTTTTAGTAATTCAAATTTTA
1 GTAATTTATTTTTTAGTAATTCAAATTCTA
885518 GTAATT
1 GTAATT
885524 CAAATTTCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 15 0.44
30 19 0.56
ACGTcount: A:0.34, C:0.05, G:0.06, T:0.55
Consensus pattern (30 bp):
GTAATTTATTTTTTAGTAATTCAAATTCTA
Found at i:885504 original size:15 final size:15
Alignment explanation
Indices: 885469--885530 Score: 81
Period size: 15 Copynumber: 4.2 Consensus size: 15
885459 GTAATTTATT
885469 TTTTA-TAATTCAAA
1 TTTTAGTAATTCAAA
* * **
885483 TTCTAGTAATTTATT
1 TTTTAGTAATTCAAA
885498 TTTTAGTAATTCAAA
1 TTTTAGTAATTCAAA
885513 TTTTAGTAATTCAAA
1 TTTTAGTAATTCAAA
885528 TTT
1 TTT
885531 CAATAATTTA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
14 4 0.10
15 35 0.90
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.53
Consensus pattern (15 bp):
TTTTAGTAATTCAAA
Found at i:885537 original size:15 final size:15
Alignment explanation
Indices: 885504--885538 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
885494 TATTTTTTAG
* *
885504 TAATTCAAATTTTAG
1 TAATTCAAATTTCAA
885519 TAATTCAAATTTCAA
1 TAATTCAAATTTCAA
885534 TAATT
1 TAATT
885539 TATTTTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.46
Consensus pattern (15 bp):
TAATTCAAATTTCAA
Found at i:885538 original size:30 final size:30
Alignment explanation
Indices: 885473--885538 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
885463 TTTATTTTTT
* ** *
885473 ATAATTCAAATTCTAGTAATTTATTTTTTA
1 ATAATTCAAATTCTAGTAATTCAAATTTCA
* *
885503 GTAATTCAAATTTTAGTAATTCAAATTTCA
1 ATAATTCAAATTCTAGTAATTCAAATTTCA
885533 ATAATT
1 ATAATT
885539 TATTTTATAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (30 bp):
ATAATTCAAATTCTAGTAATTCAAATTTCA
Found at i:889432 original size:27 final size:26
Alignment explanation
Indices: 889372--889432 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
889362 TCTCATGTTG
*
889372 ATATTATTTTTAATAATAAATATTTT
1 ATATTATTTTTAATAATAAATATTAT
* *
889398 ATTTTTATTTTT-ATTATAAATTATTAAT
1 A-TATTATTTTTAATAATAAA-TATT-AT
889426 ATATTAT
1 ATATTAT
889433 GTAAAGTGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
26 8 0.29
27 18 0.64
28 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (26 bp):
ATATTATTTTTAATAATAAATATTAT
Found at i:889996 original size:21 final size:23
Alignment explanation
Indices: 889958--890015 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 23
889948 TTAGAAGGTG
*
889958 AAATTAT-TATAATATTTTAAAAT
1 AAATTATAT-TAATTTTTTAAAAT
* *
889981 TAA-TA-ATTAATTTTTTATAAT
1 AAATTATATTAATTTTTTAAAAT
890002 AAATTATATTAATT
1 AAATTATATTAATT
890016 ATTATATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 14 0.50
22 5 0.18
23 9 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AAATTATATTAATTTTTTAAAAT
Found at i:890073 original size:24 final size:25
Alignment explanation
Indices: 890016--890073 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
890006 TATATTAATT
* *
890016 ATTATATTAAATAAATATCATAAAAT
1 ATTAT-TTAAATAAAAATCATAAAAA
* *
890042 ATTTTTTAAATAAAAATTA-AAAAA
1 ATTATTTAAATAAAAATCATAAAAA
890066 ATTATTTA
1 ATTATTTA
890074 GGTGTACCTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 11 0.41
25 12 0.44
26 4 0.15
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
ATTATTTAAATAAAAATCATAAAAA
Found at i:892416 original size:122 final size:122
Alignment explanation
Indices: 892264--892484 Score: 307
Period size: 122 Copynumber: 1.8 Consensus size: 122
892254 TAAACTATGC
* * * *
892264 GTTTAGTACCTAAACTATTAGTTTTGGTCCATTTTAGTAACAAAAATTTTAGTTTTTTCAAAACC
1 GTTTACTACCTAAACTATCAGTTTTAGTCCATTTTAGTAACAAAAATTTCAGTTTTTTCAAAACC
* * *
892329 ATACCTAACGTTTAGCTTTTGTTTCATTTTAGTACTCCGCCATTAAAAAAATTACGT
66 ATACATAACGTTTAGCTTTTCTTTCATATTAGTACTCCGCCATTAAAAAAATTACGT
* * * * *
892386 GTTTACTACCTACACTATCAGTTTTAGTCCATTTTAGTACCTAAAATTTCATTTTTTTCAAAATC
1 GTTTACTACCTAAACTATCAGTTTTAGTCCATTTTAGTAACAAAAATTTCAGTTTTTTCAAAACC
* * *
892451 ATACATAATGTTTAGTTTTTCTTTCGTATTAGTA
66 ATACATAACGTTTAGCTTTTCTTTCATATTAGTA
892485 TTACACTGTT
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
122 84 1.00
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (122 bp):
GTTTACTACCTAAACTATCAGTTTTAGTCCATTTTAGTAACAAAAATTTCAGTTTTTTCAAAACC
ATACATAACGTTTAGCTTTTCTTTCATATTAGTACTCCGCCATTAAAAAAATTACGT
Found at i:892525 original size:122 final size:121
Alignment explanation
Indices: 892265--892547 Score: 291
Period size: 122 Copynumber: 2.3 Consensus size: 121
892255 AAACTATGCG
* *
892265 TTTAGTACCTAAACTATTAGTTTTGGTCCATTTTAGTAACAAAAATTTTAGTTTTTTCAAAACCA
1 TTTAGTACCTAAACTATCAGTTTTGGTCCATTTTAGTAACAAAAATTTCAGTTTTTTCAAAACCA
* * * * * *
892330 TACCTAACGTTTAGCTTTTGTTTCATTTTAGTACTCCGCCATTAAAAAAATTACGTG
66 TACATAACGTTTAGCTTTTCTTTCATATTAGTACTACACCATTAAAAAAATTACG-A
* * * * * * *
892387 TTTACTACCTACACTATCAGTTTTAGTCCATTTTAGTACCTAAAATTTCATTTTTTTCAAAATCA
1 TTTAGTACCTAAACTATCAGTTTTGGTCCATTTTAGTAACAAAAATTTCAGTTTTTTCAAAACCA
* * * * **
892452 TACATAATGTTTAGTTTTTCTTTCGTATTAGTATTACACTGTTAAAAACTCAA-TAC-A
66 TACATAACGTTTAGCTTTTCTTTCATATTAGTACTACACCATTAAAAA---AATTACGA
* * *
892509 TTTAGTACATAAACTATCGGTTTTGGTCCGTTTTTAGTA
1 TTTAGTACCTAAACTATCAGTTTTGGTCC-ATTTTAGTA
892548 GTAAACCTCA
Statistics
Matches: 130, Mismatches: 27, Indels: 7
0.79 0.16 0.04
Matches are distributed among these distances:
122 117 0.90
123 8 0.06
124 3 0.02
125 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.43
Consensus pattern (121 bp):
TTTAGTACCTAAACTATCAGTTTTGGTCCATTTTAGTAACAAAAATTTCAGTTTTTTCAAAACCA
TACATAACGTTTAGCTTTTCTTTCATATTAGTACTACACCATTAAAAAAATTACGA
Found at i:893545 original size:2 final size:2
Alignment explanation
Indices: 893538--893588 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
893528 TAATTTATTT
893538 TA 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 TA
893580 TA TA TA TA T
1 TA TA TA TA T
893589 TTGGAGAGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:901713 original size:284 final size:285
Alignment explanation
Indices: 901125--901767 Score: 1139
Period size: 284 Copynumber: 2.3 Consensus size: 285
901115 ATCTACCTAA
901125 TTGTCAGCAAAATGAAAGATTAACAATTTCATGGTAGTTGAGGAAACTTCAAGCCATTGCTATTT
1 TTGTCAGCAAAATGAAAGATTAACAATTTCATGGTAGTTGAGGAAACTTCAAGCCATTGCTATTT
901190 AGCTCTCAATCTACCATTTTCTTAAAAGTTTGCATCAGACAATCAACAGACGAAATCATTGTCAA
66 AGCTCTCAATCTACCATTTTCTTAAAAGTTTGCATCAGACAATCAACAGACG-AA-CATTGTCAA
*
901255 ACAAATACGTGATATAGCTAAAGTAAACAAACATTTGGAAAAAAGGGGGCTTTAGATCAAGGCGA
129 ACAAATACGTGATATAGCTAAAGTAAACAAACATTTGAAAAAAAGGGGGCTTTAGATCAAGGCGA
* *
901320 TTATGATTTTCAAGAACATAAAAAGATCGTACAACCCAAATACCAAGTGAACGGCTTCTCATCTA
194 TTACGACTTTCAAGAACATAAAAAGATCGTACAACCCAAATACCAAGTGAACGGCTTCTCATCTA
901385 ACTAATTTGATTTATTTTACCCTTAAT
259 ACTAATTTGATTTATTTTACCCTTAAT
*
901412 TTGTCGGCAAAATGAAAGATTAACAATTTCATGGTAGTTGAGGAAACTTCAAGCCATTGCTATTT
1 TTGTCAGCAAAATGAAAGATTAACAATTTCATGGTAGTTGAGGAAACTTCAAGCCATTGCTATTT
*
901477 AGCTCTCAATCTACCATTTTCTTAATAGTTTGCATCAGACAATCAACAGACG-A-ATTGTCAAAC
66 AGCTCTCAATCTACCATTTTCTTAAAAGTTTGCATCAGACAATCAACAGACGAACATTGTCAAAC
901540 AAATACGTGATATAGCTAAAGTAAACAAATC-TTTGAAAAAAAGGGGGGCTTTAGATCAAGGCGA
131 AAATACGTGATATAGCTAAAGTAAACAAA-CATTTGAAAAAAA-GGGGGCTTTAGATCAAGGCGA
* * *
901604 TTACGACTTTCAATAACATAAAAAGATCGTACAACCCAAATACCAAGTGAATGGCTTCTCTTCTA
194 TTACGACTTTCAAGAACATAAAAAGATCGTACAACCCAAATACCAAGTGAACGGCTTCTCATCTA
*
901669 CCTAATTTGATTTATTTTACCCTTAAT
259 ACTAATTTGATTTATTTTACCCTTAAT
*
901696 TTGTCAGCAAAATGAAAGATTAACAATTTCATGGTAGTTGAGGAAACTTCAAGCCATTGCCATTT
1 TTGTCAGCAAAATGAAAGATTAACAATTTCATGGTAGTTGAGGAAACTTCAAGCCATTGCTATTT
901761 AGCTCTC
66 AGCTCTC
901768 CATTATGAAA
Statistics
Matches: 343, Mismatches: 11, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
283 49 0.14
284 178 0.52
285 1 0.00
287 115 0.34
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (285 bp):
TTGTCAGCAAAATGAAAGATTAACAATTTCATGGTAGTTGAGGAAACTTCAAGCCATTGCTATTT
AGCTCTCAATCTACCATTTTCTTAAAAGTTTGCATCAGACAATCAACAGACGAACATTGTCAAAC
AAATACGTGATATAGCTAAAGTAAACAAACATTTGAAAAAAAGGGGGCTTTAGATCAAGGCGATT
ACGACTTTCAAGAACATAAAAAGATCGTACAACCCAAATACCAAGTGAACGGCTTCTCATCTAAC
TAATTTGATTTATTTTACCCTTAAT
Found at i:902507 original size:6 final size:6
Alignment explanation
Indices: 902496--902520 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
902486 AATCTTCTCT
902496 CCCTTC CCCTTC CCCTTC CCCTTC C
1 CCCTTC CCCTTC CCCTTC CCCTTC C
902521 GGTGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (6 bp):
CCCTTC
Found at i:907796 original size:30 final size:30
Alignment explanation
Indices: 907762--907825 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
907752 CCATGCAATG
* *
907762 TCAGGA-AGGGGAAT-GAAGTCTCATGTAGAA
1 TCAGGACA-GGGAATGGAA-TCCCATGCAGAA
907792 TCAGGACAGGGAATGGAATCCCATGCAGAA
1 TCAGGACAGGGAATGGAATCCCATGCAGAA
907822 TCAG
1 TCAG
907826 AAATGCATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 26 0.87
31 4 0.13
ACGTcount: A:0.36, C:0.16, G:0.31, T:0.17
Consensus pattern (30 bp):
TCAGGACAGGGAATGGAATCCCATGCAGAA
Found at i:912546 original size:8 final size:8
Alignment explanation
Indices: 912533--912573 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
912523 CTCATTTTCA
912533 GAGAATTT
1 GAGAATTT
912541 GAGAATTT
1 GAGAATTT
*
912549 -AGAGTTT
1 GAGAATTT
*
912556 GGGAATTT
1 GAGAATTT
912564 GAGAATTT
1 GAGAATTT
912572 GA
1 GA
912574 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:912879 original size:128 final size:128
Alignment explanation
Indices: 912644--913142 Score: 874
Period size: 128 Copynumber: 3.9 Consensus size: 128
912634 TAATCGGAGT
*
912644 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTAT
* *
912709 CATTACCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCATTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAATACCTATTATTTC
* *** *
912772 TC-AGGGGACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATGTTA
1 ACTA-TTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTA
912836 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAATACCTATTATTTC
65 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAATACCTATTATTTC
912900 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTAT
* *
912965 CATTGCCCTATTATGTCACTCATGTCCCTAGGGGACACTAGATATATCAGTACCTATTATTTC
66 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAATACCTATTATTTC
*
913028 ACTATTCACATGAAGGCGCGTTCCCGGGGACGCGCCTTCCATTATTTCATCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTAT
913093 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGGACACTAGATATATCA
66 CATTGCCCTATTATGTCACTCATGTCCCTC-GGGGACACTAGATATATCA
913143 GTAAATCAGG
Statistics
Matches: 353, Mismatches: 15, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
127 1 0.00
128 332 0.94
129 20 0.06
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (128 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCATCAGAGAATATGTTAT
CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAATACCTATTATTTC
Found at i:913615 original size:36 final size:33
Alignment explanation
Indices: 913545--913640 Score: 126
Period size: 33 Copynumber: 3.0 Consensus size: 33
913535 AAATTTAATG
*
913545 TTAAATTTGAATACTATAATTTATATTTTAAAT
1 TTAAATTTGAATAATATAATTTATATTTTAAAT
* *
913578 TTAAATTTGAATAATATTA-TT-TATTTT-ATT
1 TTAAATTTGAATAATATAATTTATATTTTAAAT
*
913608 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTT-GAATAATATAATTTATATTTTAAA
913641 AACATTTATC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
30 10 0.19
31 16 0.30
32 4 0.07
33 23 0.43
34 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (33 bp):
TTAAATTTGAATAATATAATTTATATTTTAAAT
Found at i:913636 original size:28 final size:28
Alignment explanation
Indices: 913545--913640 Score: 88
Period size: 31 Copynumber: 3.2 Consensus size: 28
913535 AAATTTAATG
*
913545 TTAAATTTGAATACTATAATTTATATTTTAAAT
1 TTAAATTTGAATA--AT-A-TTATATTTT-ATT
913578 TTAAATTTGAATAATATTATTTATTTTATT
1 TTAAATTTGAATAATATTA--TATTTTATT
913608 TTAAATTTCGAATAATA-TA-ATTTGTATT
1 TTAAATTT-GAATAATATTATATTT-TATT
913636 TTAAA
1 TTAAA
913641 AACATTTATC
Statistics
Matches: 58, Mismatches: 1, Indels: 13
0.81 0.01 0.18
Matches are distributed among these distances:
27 4 0.07
28 9 0.16
29 3 0.05
30 13 0.22
31 16 0.28
33 13 0.22
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (28 bp):
TTAAATTTGAATAATATTATATTTTATT
Found at i:914236 original size:21 final size:21
Alignment explanation
Indices: 914148--914241 Score: 120
Period size: 21 Copynumber: 4.5 Consensus size: 21
914138 TATGGTATAA
*
914148 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
914169 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
*
914190 AA-CCTGGTGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
914211 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
914232 AACCCTGCGG
1 AACCCTGCGG
914242 AGATGGCATA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
20 3 0.04
21 61 0.91
22 3 0.04
ACGTcount: A:0.20, C:0.26, G:0.35, T:0.19
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:914271 original size:21 final size:21
Alignment explanation
Indices: 914245--914292 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
914235 CCTGCGGAGA
*
914245 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
914266 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
914287 GGGCAT
1 TGGCAT
914293 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:916096 original size:34 final size:33
Alignment explanation
Indices: 916014--916117 Score: 100
Period size: 34 Copynumber: 3.1 Consensus size: 33
916004 TAATAATTCT
* * * *
916014 AAATAAATAATAATTATATAAATATTATTTTAATA
1 AAAT-AATAATATTTAAATAAATATTAATATAA-A
* *
916049 AAAAAATAATATTTACATAAATATTAATATAAA
1 AAATAATAATATTTAAATAAATATTAATATAAA
* * *
916082 AAATAATAACTATTTAAAAAAATACTAACATAAA
1 AAATAATAA-TATTTAAATAAATATTAATATAAA
916116 AA
1 AA
916118 TAAATTTCTT
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
33 9 0.16
34 46 0.79
35 3 0.05
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (33 bp):
AAATAATAATATTTAAATAAATATTAATATAAA
Found at i:920664 original size:13 final size:14
Alignment explanation
Indices: 920637--920671 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
920627 AAAAATATCT
920637 AATATTAATTAATA
1 AATATTAATTAATA
*
920651 AATCTTAA-TAATA
1 AATATTAATTAATA
920664 AATATTAA
1 AATATTAA
920672 CCTAATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATTAATTAATA
Found at i:929697 original size:2 final size:2
Alignment explanation
Indices: 929685--929729 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
929675 CAACTTTTAC
*
929685 TA TA AA 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 TA
929727 TA T
1 TA T
929730 CCCTAAACCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 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):
TA
Found at i:931351 original size:184 final size:181
Alignment explanation
Indices: 930986--931370 Score: 607
Period size: 184 Copynumber: 2.1 Consensus size: 181
930976 TTTTCTAATT
* * *
930986 TATATAA-AAATTAAATATTTTATAATTCAAAAAAACAGTTTATAATTAATTTAAATAATATATA
1 TATATAATATATTAAATATTTTATAATTCAAAAAAACAGTTTACAATTAATTTAAAAAATATATA
931050 TAAAATAAAAATTTTATATAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGAA
66 TAAAATAAAAATTTTATATAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGAA
* *
931115 TCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTGAGTCCATATGTTA
131 TCTTAAATTATTAATTGGGATTTAAATGGTTTGGGCTGAGCCCATATGTTA
* *
931166 TATATAATATATTAAATATTTTTTAATTC-AAAAAATAGTTTACAATTAATTTAAAAAATATATA
1 TATATAATATATTAAATATTTTATAATTCAAAAAAACAGTTTACAATTAATTT-AAAAA-ATAT-
*
931230 ATTATAAAATATAAATTTTATATAAATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
63 A-TATAAAATAAAAATTTTATATAAA-TTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTA
*
931295 TTGGATCTTAAATTATTAATT-GGATTTAAATGGTTTGGGCTGAGCCCATATGTTA
126 TTGAATCTTAAATTATTAATTGGGATTTAAATGGTTTGGGCTGAGCCCATATGTTA
931350 TATATAATATATTTAAA-ATTT
1 TATATAATATA-TTAAATATTT
931371 AAAATTTATT
Statistics
Matches: 189, Mismatches: 9, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
180 28 0.15
181 23 0.12
182 4 0.02
183 1 0.01
184 70 0.37
185 63 0.33
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (181 bp):
TATATAATATATTAAATATTTTATAATTCAAAAAAACAGTTTACAATTAATTTAAAAAATATATA
TAAAATAAAAATTTTATATAAATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGAA
TCTTAAATTATTAATTGGGATTTAAATGGTTTGGGCTGAGCCCATATGTTA
Found at i:931394 original size:9 final size:9
Alignment explanation
Indices: 931380--931408 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
931370 TAAAATTTAT
931380 TTCGGTTAA
1 TTCGGTTAA
931389 TTCGGTTAA
1 TTCGGTTAA
931398 TTCGGTTAA
1 TTCGGTTAA
931407 TT
1 TT
931409 AACCGATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.48
Consensus pattern (9 bp):
TTCGGTTAA
Done.