Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003157.1 Hibiscus syriacus cultivar Beakdansim tig00006641_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: 217688
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
File 1 of 2
Found at i:1569 original size:12 final size:12
Alignment explanation
Indices: 1554--1578 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1544 CTTTCGGGGA
1554 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1566 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1578 C
1 C
1579 AGGATATGAA
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1786 original size:24 final size:23
Alignment explanation
Indices: 1748--1801 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 23
1738 CTGAAACATC
*
1748 ATCAAATCTGAGTATTGACCAAT
1 ATCAAATCTGAGTATTGACCAAG
*
1771 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAA-TCTGAGTATTGACCAAG
1795 ATCAAAT
1 ATCAAAT
1802 TTCGAATACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (23 bp):
ATCAAATCTGAGTATTGACCAAG
Found at i:2636 original size:41 final size:41
Alignment explanation
Indices: 2517--2654 Score: 145
Period size: 41 Copynumber: 3.4 Consensus size: 41
2507 AACTTTGAAA
* * * * *
2517 ATCGCATTACGATTCTGTATTATCTCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGATTTTGTATTATCACGTTGCGAAAGTCAGT
** *
2558 ATCGCGTTGCGA--AAGTCAGTATCACGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATTTTGT-ATTATCACGTTGCGAAAGTCAGT
* * *
2598 ATCGTGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCACGTTGCGAAAGTCAGT
*
2639 ATCGCATTGCGATTTT
1 ATCGCGTTGCGATTTT
2655 CCCAATTTGC
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 2 0.03
40 31 0.39
41 44 0.56
42 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (41 bp):
ATCGCGTTGCGATTTTGTATTATCACGTTGCGAAAGTCAGT
Found at i:2651 original size:20 final size:20
Alignment explanation
Indices: 2537--2650 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
2527 GATTCTGTAT
*
2537 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
2557 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
2577 TATCACGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
2597 TATCGTGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
*
2618 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
2638 TATCGCATTGCGA
1 TATCGCGTTGCGA
2651 TTTTCCCAAT
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
19 3 0.04
20 60 0.77
21 13 0.17
22 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:2667 original size:41 final size:41
Alignment explanation
Indices: 2517--2672 Score: 111
Period size: 41 Copynumber: 3.8 Consensus size: 41
2507 AACTTTGAAA
* * ** * * *
2517 ATCGCATTACGATTCTGTATTATCTCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTTTCAATTATCGCGTTGCGATAGTCAGT
* *** * * *
2558 ATCGCGTTGCGAAAGTC-AGTATCACGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTCAATTATCGCGTTGCGATAGTCAGT
** **
2598 ATCGTGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCAATTATCGCGTTGCGATAGTCAGT
2639 ATCGCATTGCGATTTTCCCAATT-T-GCGTTGCGAT
1 ATCGCATTGCGATTTT--CAATTATCGCGTTGCGAT
2673 TTACTTATTC
Statistics
Matches: 91, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
40 32 0.35
41 55 0.60
42 1 0.01
43 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (41 bp):
ATCGCATTGCGATTTTCAATTATCGCGTTGCGATAGTCAGT
Found at i:2761 original size:21 final size:21
Alignment explanation
Indices: 2721--2761 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2711 ACTGTAGACC
**
2721 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
2742 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
2762 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:2791 original size:20 final size:20
Alignment explanation
Indices: 2768--2813 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
2758 CAACGCGAAT
*
2768 TTGCGATAATAGAGATCGCG
1 TTGCGATAATAGAGATCGCA
* *
2788 TTGCGA-ATTAGCGATCGCA
1 TTGCGATAATAGAGATCGCA
2807 TTGCGAT
1 TTGCGAT
2814 TTTGTTGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (20 bp):
TTGCGATAATAGAGATCGCA
Found at i:20234 original size:2 final size:2
Alignment explanation
Indices: 20227--20251 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20217 ATATTTTAAA
20227 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
20252 TATATATATA
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:20256 original size:2 final size:2
Alignment explanation
Indices: 20251--20297 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
20241 ACACACACAC
20251 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20293 AT AT A
1 AT AT A
20298 ACATGAACAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20507 original size:24 final size:24
Alignment explanation
Indices: 20475--20562 Score: 88
Period size: 24 Copynumber: 3.7 Consensus size: 24
20465 TATAAAAAAA
*
20475 ATCAAAACAGAATTCATATAAGAT
1 ATCAGAACAGAATTCATATAAGAT
* * * * *
20499 ATCATAACAAAATCCATATCAGAA
1 ATCAGAACAGAATTCATATAAGAT
* *
20523 ATCAGAACAGAATTCATGTCATG-T
1 ATCAGAACAGAATTCATAT-AAGAT
20547 ATCAGAACAGAATTCA
1 ATCAGAACAGAATTCA
20563 ACATAACATA
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
24 50 0.98
25 1 0.02
ACGTcount: A:0.49, C:0.17, G:0.10, T:0.24
Consensus pattern (24 bp):
ATCAGAACAGAATTCATATAAGAT
Found at i:24714 original size:36 final size:34
Alignment explanation
Indices: 24674--24767 Score: 104
Period size: 36 Copynumber: 2.8 Consensus size: 34
24664 ATAATAATAT
24674 ATCACTTGATAAATAGATTTATTAATTATAAGTCGC
1 ATCACTTGATAAATAGATTTATTAATTATAA-T-GC
* * * * *
24710 ATCACTAGATGAATAAACTTATT-ATTATCATGC
1 ATCACTTGATAAATAGATTTATTAATTATAATGC
24743 -T-ACTTGATAAATAGATTTATTAATT
1 ATCACTTGATAAATAGATTTATTAATT
24768 TTTATTTAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
31 16 0.33
32 4 0.08
33 2 0.04
34 1 0.02
35 6 0.12
36 19 0.40
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (34 bp):
ATCACTTGATAAATAGATTTATTAATTATAATGC
Found at i:25027 original size:11 final size:11
Alignment explanation
Indices: 24994--25019 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
24984 AACCGAATTT
24994 TATAAATAATA
1 TATAAATAATA
25005 TATAAATAATA
1 TATAAATAATA
25016 TATA
1 TATA
25020 TTTAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TATAAATAATA
Found at i:32831 original size:20 final size:20
Alignment explanation
Indices: 32806--32846 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
32796 TAGGGAGAGG
*
32806 ATTGAAAGGTTATGACCTTT
1 ATTGAAAGGTTAAGACCTTT
32826 ATTGAAAGGTTAAGACCTTT
1 ATTGAAAGGTTAAGACCTTT
32846 A
1 A
32847 AATGAAATGA
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:0.10, G:0.20, T:0.37
Consensus pattern (20 bp):
ATTGAAAGGTTAAGACCTTT
Found at i:35901 original size:21 final size:21
Alignment explanation
Indices: 35877--35916 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
35867 TTTAACATCT
*
35877 TAATATAAAATAAAATAAAAA
1 TAATATAAAACAAAATAAAAA
* *
35898 TAATCTTAAACAAAATAAA
1 TAATATAAAACAAAATAAA
35917 TCACAATTCT
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:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
TAATATAAAACAAAATAAAAA
Found at i:37979 original size:14 final size:14
Alignment explanation
Indices: 37960--37989 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
37950 TTTAAAGTAT
37960 TTTACGATTTATTG
1 TTTACGATTTATTG
37974 TTTACGATTTATTG
1 TTTACGATTTATTG
37988 TT
1 TT
37990 ATGTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (14 bp):
TTTACGATTTATTG
Found at i:38134 original size:28 final size:25
Alignment explanation
Indices: 38092--38151 Score: 120
Period size: 25 Copynumber: 2.4 Consensus size: 25
38082 TTTGTAGTAA
38092 AAAAATAATATTTATTATAATGACG
1 AAAAATAATATTTATTATAATGACG
38117 AAAAATAATATTTATTATAATGACG
1 AAAAATAATATTTATTATAATGACG
38142 AAAAATAATA
1 AAAAATAATA
38152 GCACCATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (25 bp):
AAAAATAATATTTATTATAATGACG
Found at i:38459 original size:26 final size:25
Alignment explanation
Indices: 38427--38487 Score: 95
Period size: 26 Copynumber: 2.4 Consensus size: 25
38417 TATTTTAGCA
*
38427 GAAAAATAATTTTTATTATAATGAG
1 GAAAAATAATATTTATTATAATGAG
*
38452 GAAAAAATAATATTTATTATAATGAT
1 G-AAAAATAATATTTATTATAATGAG
38478 GAAAAATAAT
1 GAAAAATAAT
38488 GGTACCATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 10 0.30
26 23 0.70
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.36
Consensus pattern (25 bp):
GAAAAATAATATTTATTATAATGAG
Found at i:38545 original size:45 final size:45
Alignment explanation
Indices: 38494--38581 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
38484 TAATGGTACC
* *
38494 ATTAATTATCCATTAATAACCCGGGTAGGTTGGTGGTTGGTGGAT
1 ATTAATTATCCATTAATAACCCAGATAGGTTGGTGGTTGGTGGAT
*
38539 ATTAATTATCCATTAATAACCCAGATAGGTTTGTGGTTGGTGG
1 ATTAATTATCCATTAATAACCCAGATAGGTTGGTGGTTGGTGG
38582 TTGAACGGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.36
Consensus pattern (45 bp):
ATTAATTATCCATTAATAACCCAGATAGGTTGGTGGTTGGTGGAT
Found at i:40331 original size:14 final size:15
Alignment explanation
Indices: 40314--40344 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
40304 AACCCGCCTG
40314 ACCCA-ACTGAGTCA
1 ACCCACACTGAGTCA
40328 ACCCACACTGAGTCA
1 ACCCACACTGAGTCA
40343 AC
1 AC
40345 TCGGTTGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.35, C:0.39, G:0.13, T:0.13
Consensus pattern (15 bp):
ACCCACACTGAGTCA
Found at i:40402 original size:30 final size:30
Alignment explanation
Indices: 40368--40446 Score: 113
Period size: 30 Copynumber: 2.6 Consensus size: 30
40358 CTCATTGGAT
40368 CGTTGATCGTTGACTTTGAATGAGTCAACC
1 CGTTGATCGTTGACTTTGAATGAGTCAACC
* *
40398 CGTTGATCCTTGACTTTGACTGAGTCAACC
1 CGTTGATCGTTGACTTTGAATGAGTCAACC
* * *
40428 CGTTAACCGTTGATTTTGA
1 CGTTGATCGTTGACTTTGA
40447 TTTTGACCTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (30 bp):
CGTTGATCGTTGACTTTGAATGAGTCAACC
Found at i:42022 original size:12 final size:12
Alignment explanation
Indices: 42005--42030 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
41995 GATTCTAACT
42005 TCCGGAATTATA
1 TCCGGAATTATA
42017 TCCGGAATTATA
1 TCCGGAATTATA
42029 TC
1 TC
42031 GGTATACTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (12 bp):
TCCGGAATTATA
Found at i:42276 original size:31 final size:32
Alignment explanation
Indices: 42240--42306 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
42230 GTGACCCTTG
* *
42240 GGTAGG-CTCTGCGGCCCCGAGAACTTTCTTA
1 GGTAGGCCTATGCGGCCCCAAGAACTTTCTTA
* *
42271 GGTAGGCCTATGTGGCCCCAAGAACTTTCTTG
1 GGTAGGCCTATGCGGCCCCAAGAACTTTCTTA
42303 GGTA
1 GGTA
42307 AACTCTCAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 6 0.19
32 25 0.81
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.27
Consensus pattern (32 bp):
GGTAGGCCTATGCGGCCCCAAGAACTTTCTTA
Found at i:44167 original size:27 final size:27
Alignment explanation
Indices: 44129--44370 Score: 112
Period size: 27 Copynumber: 8.3 Consensus size: 27
44119 TATTTTAATG
44129 AATGTGATTAATATCAATAGT-TGAATT
1 AATGTGATTAATATCAATA-TCTGAATT
44156 AATGTGATTAATATCAATATCTGAATT
1 AATGTGATTAATATCAATATCTGAATT
* * * * * * *
44183 AATATGATGGATATTTGTTGAAGTTATATTTTAATG
1 AATGTGAT---TA-AT-AT-CA---ATATCTGAATT
44219 AATGTGATTAATATCAATAGT-TGAATT
1 AATGTGATTAATATCAATA-TCTGAATT
*
44246 AATGTGATTAATATCAATATTTGAATT
1 AATGTGATTAATATCAATATCTGAATT
** ** * * *
44273 AATATGATGGATATTTGTTGATGTTATATTTTAATG
1 -A-ATG-T-G--A-TTAAT-AT-CAATATCTGAATT
44309 AATGTGATTAATATCAATAGT-TGAATT
1 AATGTGATTAATATCAATA-TCTGAATT
* * *
44336 AATATGATTAATATCAATATTTGAATG
1 AATGTGATTAATATCAATATCTGAATT
44363 AATGTGAT
1 AATGTGAT
44371 GGATATTAAT
Statistics
Matches: 164, Mismatches: 28, Indels: 46
0.69 0.12 0.19
Matches are distributed among these distances:
26 3 0.02
27 101 0.62
28 5 0.03
29 6 0.04
30 5 0.03
31 3 0.02
32 3 0.02
33 5 0.03
34 6 0.04
35 3 0.02
36 24 0.15
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.43
Consensus pattern (27 bp):
AATGTGATTAATATCAATATCTGAATT
Found at i:44188 original size:90 final size:90
Alignment explanation
Indices: 44089--44377 Score: 533
Period size: 90 Copynumber: 3.2 Consensus size: 90
44079 TATTTTTTTT
44089 AATTAATATGATGGATATTTGTTGAAGTTATATTTTAATGAATGTGATTAATATCAATAGTTGAA
1 AATTAATATGATGGATATTTGTTGAAGTTATATTTTAATGAATGTGATTAATATCAATAGTTGAA
*
44154 TTAATGTGATTAATATCAATATCTG
66 TTAATGTGATTAATATCAATATTTG
44179 AATTAATATGATGGATATTTGTTGAAGTTATATTTTAATGAATGTGATTAATATCAATAGTTGAA
1 AATTAATATGATGGATATTTGTTGAAGTTATATTTTAATGAATGTGATTAATATCAATAGTTGAA
44244 TTAATGTGATTAATATCAATATTTG
66 TTAATGTGATTAATATCAATATTTG
*
44269 AATTAATATGATGGATATTTGTTGATGTTATATTTTAATGAATGTGATTAATATCAATAGTTGAA
1 AATTAATATGATGGATATTTGTTGAAGTTATATTTTAATGAATGTGATTAATATCAATAGTTGAA
*
44334 TTAATATGATTAATATCAATATTTG
66 TTAATGTGATTAATATCAATATTTG
* *
44359 AATGAATGTGATGGATATT
1 AATTAATATGATGGATATT
44378 AATTCAACTT
Statistics
Matches: 194, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 194 1.00
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.44
Consensus pattern (90 bp):
AATTAATATGATGGATATTTGTTGAAGTTATATTTTAATGAATGTGATTAATATCAATAGTTGAA
TTAATGTGATTAATATCAATATTTG
Found at i:45320 original size:19 final size:19
Alignment explanation
Indices: 45292--45329 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
45282 TACAAAACAA
* *
45292 AATTATATAATTATTAAAT
1 AATTAAATAATTATAAAAT
45311 AATTAAATAATTATAAAAT
1 AATTAAATAATTATAAAAT
45330 TCAACTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTAAATAATTATAAAAT
Found at i:46752 original size:106 final size:102
Alignment explanation
Indices: 46520--46754 Score: 305
Period size: 106 Copynumber: 2.3 Consensus size: 102
46510 AAAATCTATT
*
46520 AAATCAAAATAAATAGTCTAATTAATTTATATTTTCAATAAAAACAAAACAAAAAAATTTTAAAC
1 AAATCAAAATAAATAGTCTAA-TAATTTATATTCTCAATAAAAACAAAACAAAAAAATTTTAAAC
* *
46585 TAAACTTATCAAACCACTCAAATACAATTTAATATGTA
65 TAAACTTACCAAACCACTCAAATACAACTTAATATGTA
* * *
46623 AAATCAAAATAAATA-TTTCAATAATTTATATTACTCGATAAAAA-ATAAA-AAAATAATTTAAA
1 AAATCAAAATAAATAGTCT-AATAATTTATATT-CTCAATAAAAACA-AAACAAAAAAATTT---
*
46685 CTAAACTAAACTTACCAAACTACTCAAATACAACTTAATATGTA
60 -TAAACTAAACTTACCAAACCACTCAAATACAACTTAATATGTA
*
46729 AAATAAAAATAAATAGTCTAATAATT
1 AAATCAAAATAAATAGTCTAATAATT
46755 ATAATTTAAA
Statistics
Matches: 115, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
102 23 0.20
103 29 0.25
106 61 0.53
107 2 0.02
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (102 bp):
AAATCAAAATAAATAGTCTAATAATTTATATTCTCAATAAAAACAAAACAAAAAAATTTTAAACT
AAACTTACCAAACCACTCAAATACAACTTAATATGTA
Found at i:47124 original size:330 final size:323
Alignment explanation
Indices: 46512--47209 Score: 904
Period size: 330 Copynumber: 2.1 Consensus size: 323
46502 TAAACAACAA
* * *
46512 AATCTATTAAATCAAAATAAATAGTCTAATTAATTTATATTTTCAATAAAAACAAAACAAAAAAA
1 AATCTATAAAATCAAAATAAATAGACTAATTAATTTATATTTTCAATAAAAACAAAAAAAAAAAA
* * *
46577 TTTTAAACTAAACTTATCAAACCACTCAAATACAATTTAATATGTAAAATCAAAATAAATATTTC
66 TTTTAAACTAAACTTACCAAACCACTCAAATACAATTTAATATGTAAAATAAAAATAAATATCTC
*
46642 AATAATTTATATTACTCGATAAAAAATAAAAAAATAATTTAAACTAAACTAAACTTACCAAACTA
131 AATAATTTATATTACTCAATAAAAAATAAAAAAATAATTTAAACT-AAC--AACTTACCAAACTA
46707 CTCAAATACAACTTAATATGTAAAATAAAAATAAATAGTCTAATAATTATAATTTAAAATTAAAA
193 CTCAAATACAACTTAATATGTAAAATAAAAATAAATAGTCTAATAATTATAATTTAAAATTAAAA
* * * * * *
46772 CAAAAATTATACTAAAAATTACACGAAAATTTAAATTTAACTTACCAAACCACTTGAATACAGTT
258 CAAAAATTACACTAAAAATTACACGAAAATTAAAATTAAAATTACCAAACCACTCGAATACAATT
46837 T
323 T
*
46838 AATCTATAAAATCAAAATAAATAGACTAATTAATTTAT-TTTTATAATAAAAACACAAAATAAAA
1 AATCTATAAAATCAAAATAAATAGACTAATTAATTTATATTTT-CAAT-AAAA-AC-AAA-AAAA
*** ** *
46902 CAATAAATTTTAAACTAAACTTACCAAGGTACTCAAATATGATTTAATTTGTAAAATAAAAATAA
61 -AA-AAATTTTAAACTAAACTTACCAAACCACTCAAATACAATTTAATATGTAAAATAAAAATAA
* ***
46967 TTAGTCT-AATAATTTATATTACTCAATAAAAAGATAATGTAATAATTTAAACT-AC-ACTTACC
124 ATA-TCTCAATAATTTATATTACTCAATAAAAA-ATAAAAAAATAATTTAAACTAACAACTTACC
** * * *
47029 AAGTTTTATTCATATACAACTTAATATGTAAAATTAAAATAAATAGTCTAATAATTATAATTT-A
187 AA--ACTACTCAAATACAACTTAATATGTAAAATAAAAATAAATAGTCTAATAATTATAATTTAA
* **
47093 AATTAAAAACAAAAATTACACTAAAAATTACACGAAAATTAAAATTAAAATTATCAAGTCACTCG
250 AATT-AAAACAAAAATTACACTAAAAATTACACGAAAATTAAAATTAAAATTACCAAACCACTCG
47158 AATACAATTT
314 AATACAATTT
* *
47168 AATATGTAAAATCAAAATAAATA-ATCTAATTAATTTATATTT
1 AATCTATAAAATCAAAATAAATAGA-CTAATTAATTTATATTT
47210 CAAAGAAAAA
Statistics
Matches: 324, Mismatches: 34, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
325 4 0.01
326 39 0.12
327 4 0.01
328 11 0.03
329 9 0.03
330 152 0.47
331 7 0.02
332 79 0.24
333 19 0.06
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.33
Consensus pattern (323 bp):
AATCTATAAAATCAAAATAAATAGACTAATTAATTTATATTTTCAATAAAAACAAAAAAAAAAAA
TTTTAAACTAAACTTACCAAACCACTCAAATACAATTTAATATGTAAAATAAAAATAAATATCTC
AATAATTTATATTACTCAATAAAAAATAAAAAAATAATTTAAACTAACAACTTACCAAACTACTC
AAATACAACTTAATATGTAAAATAAAAATAAATAGTCTAATAATTATAATTTAAAATTAAAACAA
AAATTACACTAAAAATTACACGAAAATTAAAATTAAAATTACCAAACCACTCGAATACAATTT
Found at i:51995 original size:12 final size:12
Alignment explanation
Indices: 51978--52028 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
51968 TTCAAAGAGG
51978 TTTTATATTTAA
1 TTTTATATTTAA
51990 TTTTATA-TTATA
1 TTTTATATTTA-A
*
52002 TTTGAT-TTTAA
1 TTTTATATTTAA
52013 TTTTA-ATATTAA
1 TTTTATAT-TTAA
52025 TTTT
1 TTTT
52029 TTAAATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:52109 original size:26 final size:22
Alignment explanation
Indices: 52046--52109 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 22
52036 AATTAAATAT
52046 TAAAT-TTTTAATATTATATTA
1 TAAATATTTTAATATTATATTA
* *
52067 TAGATA-TTTAATTTTATATCATA
1 TAAATATTTTAATATTATAT--TA
52090 TAAATTATTTTAAATATTAT
1 TAAA-TATTTT-AATATTAT
52110 TAAAAATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
21 16 0.48
23 5 0.15
24 2 0.06
25 3 0.09
26 7 0.21
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TAAATATTTTAATATTATATTA
Found at i:52636 original size:31 final size:31
Alignment explanation
Indices: 52601--52660 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
52591 TAGTTGTATG
*
52601 AATTATTTAAAT-TTCAATATTGTAAAACTAA
1 AATTATTTAAATCTT-AATATTGCAAAACTAA
*
52632 AATTATTTAAATCTTAGTATTGCAAAACT
1 AATTATTTAAATCTTAATATTGCAAAACT
52661 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (31 bp):
AATTATTTAAATCTTAATATTGCAAAACTAA
Found at i:54481 original size:20 final size:19
Alignment explanation
Indices: 54437--54492 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
54427 CAGTTTCCAA
54437 ATTCGCAACGCGAATATCTAG
1 ATTCGCAACGCG-AT-TCTAG
*
54458 ATTCGCAACGCGATTGTAAG
1 ATTCGCAACGCGATTCT-AG
54478 ATTCGCAACGCGATT
1 ATTCGCAACGCGATT
54493 TTGAAAAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 2 0.06
20 19 0.58
21 12 0.36
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.25
Consensus pattern (19 bp):
ATTCGCAACGCGATTCTAG
Found at i:54570 original size:44 final size:41
Alignment explanation
Indices: 54492--54573 Score: 112
Period size: 44 Copynumber: 1.9 Consensus size: 41
54482 GCAACGCGAT
*
54492 TTTGAAAAATGTGTTGCGATAGTTAAAATATGTTGCGAGAG
1 TTTGAAAAATGTGTTGCGATAGTGAAAATATGTTGCGAGAG
54533 TTTGAAAAACGTGTTGTTGCGATAGTGAAAA-AGTGTTGCGA
1 TTTGAAAAA--TG-TGTTGCGATAGTGAAAATA-TGTTGCGA
54574 TAGTGAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
41 9 0.25
43 3 0.08
44 24 0.67
ACGTcount: A:0.33, C:0.06, G:0.28, T:0.33
Consensus pattern (41 bp):
TTTGAAAAATGTGTTGCGATAGTGAAAATATGTTGCGAGAG
Found at i:54571 original size:19 final size:20
Alignment explanation
Indices: 54494--54584 Score: 96
Period size: 19 Copynumber: 4.4 Consensus size: 20
54484 AACGCGATTT
54494 TGAAAAATGTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
* * *
54514 T-TAAAATATGTTGCGAGAG
1 TGAAAAATGTGTTGCGATAG
54533 TTTGAAAAACGTGTTGTTGCGATAG
1 --TGAAAAA--TG-TGTTGCGATAG
54558 TGAAAAA-GTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
54577 TGAAAAAT
1 TGAAAAAT
54585 CCAAAATAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
19 33 0.57
20 2 0.03
21 1 0.02
22 4 0.07
23 7 0.12
24 1 0.02
25 10 0.17
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.31
Consensus pattern (20 bp):
TGAAAAATGTGTTGCGATAG
Found at i:54901 original size:6 final size:6
Alignment explanation
Indices: 54890--54921 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
54880 TCCCGTCTCA
54890 TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TG
1 TGGTCG TGGTCG TGGTCG TGGTCG TGGTCG TG
54922 TTTGCAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.16, G:0.50, T:0.34
Consensus pattern (6 bp):
TGGTCG
Found at i:54966 original size:20 final size:20
Alignment explanation
Indices: 54941--55153 Score: 166
Period size: 20 Copynumber: 10.5 Consensus size: 20
54931 TTGTATTGTT
54941 GCGTTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
* ***
54961 GCGTTGCGATTTTGT-ATTGTC
1 GCGTTGCGA--TAGTCAGAATC
54982 GCGTTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
* ***
55002 GCGTTGCGATTTTGT-ATTGTC
1 GCGTTGCGA--TAGTCAGAATC
*
55023 GCGTTGCGATAGTCAAAATC
1 GCGTTGCGATAGTCAGAATC
* ***
55043 GCGTTGCGATTTTGT-ATTGTC
1 GCGTTGCGA--TAGTCAGAATC
*
55064 GCGTTGCGATAGTCTGAATC
1 GCGTTGCGATAGTCAGAATC
* **
55084 GCGTTGCGATTTTGT-ATTATC
1 GCGTTGCGA--TAGTCAGAATC
55105 GC-TTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
55124 GCGTTGCGATAGTCAGAATC
1 GCGTTGCGATAGTCAGAATC
55144 GCGTTGCGAT
1 GCGTTGCGAT
55154 TTACAAATTC
Statistics
Matches: 148, Mismatches: 32, Indels: 26
0.72 0.16 0.13
Matches are distributed among these distances:
18 3 0.02
19 15 0.10
20 77 0.52
21 41 0.28
22 12 0.08
ACGTcount: A:0.19, C:0.18, G:0.29, T:0.35
Consensus pattern (20 bp):
GCGTTGCGATAGTCAGAATC
Found at i:54986 original size:41 final size:41
Alignment explanation
Indices: 54923--55133 Score: 370
Period size: 41 Copynumber: 5.2 Consensus size: 41
54913 GTGGTCGTGT
* *
54923 TTGCAATTTTGTATTGTTGCGTTGCGATAGTCAGAATCGCG
1 TTGCGATTTTGTATTGTCGCGTTGCGATAGTCAGAATCGCG
54964 TTGCGATTTTGTATTGTCGCGTTGCGATAGTCAGAATCGCG
1 TTGCGATTTTGTATTGTCGCGTTGCGATAGTCAGAATCGCG
*
55005 TTGCGATTTTGTATTGTCGCGTTGCGATAGTCAAAATCGCG
1 TTGCGATTTTGTATTGTCGCGTTGCGATAGTCAGAATCGCG
*
55046 TTGCGATTTTGTATTGTCGCGTTGCGATAGTCTGAATCGCG
1 TTGCGATTTTGTATTGTCGCGTTGCGATAGTCAGAATCGCG
*
55087 TTGCGATTTTGTATTATCGC-TTGCGATAGTCAGAATCGCG
1 TTGCGATTTTGTATTGTCGCGTTGCGATAGTCAGAATCGCG
55127 TTGCGAT
1 TTGCGAT
55134 AGTCAGAATC
Statistics
Matches: 163, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
40 26 0.16
41 137 0.84
ACGTcount: A:0.18, C:0.17, G:0.27, T:0.38
Consensus pattern (41 bp):
TTGCGATTTTGTATTGTCGCGTTGCGATAGTCAGAATCGCG
Found at i:55193 original size:21 final size:21
Alignment explanation
Indices: 55169--55215 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
55159 AATTCGCATT
*
55169 GCGATTTTCTAAAATCGCAAC
1 GCGATTTTCGAAAATCGCAAC
* * *
55190 GCGAATTTGGAAAATCGCAAT
1 GCGATTTTCGAAAATCGCAAC
55211 GCGAT
1 GCGAT
55216 AGTCAAAATC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (21 bp):
GCGATTTTCGAAAATCGCAAC
Found at i:55207 original size:101 final size:102
Alignment explanation
Indices: 55021--55234 Score: 234
Period size: 101 Copynumber: 2.1 Consensus size: 102
55011 TTTTGTATTG
*** * * *
55021 TCGCGTTGCGATAGTCAAAATCGCGTTGCGATTTTGTATTGTCGCGTTGCGATAGTCTGAATCGC
1 TCGCGTTGCGATAGTCAAAATCGCGTTGCGATTTACAAATGTCGCATTGCGATAGTCTAAATCGC
*** * * ** * *
55086 GTTGCGATTTTGTATTATCGC-TTGCGATAGTCAGAA
66 AACGCGAATTTGGAAAATCGCAATGCGATAGTCAAAA
* **
55122 TCGCGTTGCGATAGTCAGAATCGCGTTGCGATTTACAAAT-TCGCATTGCGATTTTCTAAAATCG
1 TCGCGTTGCGATAGTCAAAATCGCGTTGCGATTTACAAATGTCGCATTGCGATAGTCT-AAATCG
55186 CAACGCGAATTTGGAAAATCGCAATGCGATAGTCAAAA
65 CAACGCGAATTTGGAAAATCGCAATGCGATAGTCAAAA
*
55224 TCGTGTTGCGA
1 TCGCGTTGCGA
55235 ATCTGGAAAC
Statistics
Matches: 92, Mismatches: 19, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
100 14 0.15
101 55 0.60
102 23 0.25
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (102 bp):
TCGCGTTGCGATAGTCAAAATCGCGTTGCGATTTACAAATGTCGCATTGCGATAGTCTAAATCGC
AACGCGAATTTGGAAAATCGCAATGCGATAGTCAAAA
Found at i:55225 original size:20 final size:20
Alignment explanation
Indices: 55102--55226 Score: 76
Period size: 20 Copynumber: 6.2 Consensus size: 20
55092 ATTTTGTATT
*
55102 ATCGC-TTGCGATAGTCAGA
1 ATCGCATTGCGATAGTCAAA
* *
55121 ATCGCGTTGCGATAGTCAGA
1 ATCGCATTGCGATAGTCAAA
* *
55141 ATCGCGTTGCGAT-TTACAAA
1 ATCGCATTGCGATAGT-CAAA
* **
55161 TTCGCATTGCGATTTTCTAAA
1 ATCGCATTGCGATAGTC-AAA
** * *
55182 ATCGCAACGCGA-ATTTGGAAA
1 ATCGCATTGCGATA-GT-CAAA
*
55203 ATCGCAATGCGATAGTCAAA
1 ATCGCATTGCGATAGTCAAA
55223 ATCG
1 ATCG
55227 TGTTGCGAAT
Statistics
Matches: 87, Mismatches: 12, Indels: 13
0.78 0.11 0.12
Matches are distributed among these distances:
19 6 0.07
20 49 0.56
21 31 0.36
22 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAAA
Found at i:55235 original size:41 final size:41
Alignment explanation
Indices: 55128--55243 Score: 108
Period size: 41 Copynumber: 2.8 Consensus size: 41
55118 AGAATCGCGT
* ** * *
55128 TGCGATAGTCAGAATCGCGTTGCG-ATTTACAAATTCGCAT
1 TGCGATAGTCAAAATCGCGTTGCGAATTTGGAAAATCGCAA
** ***
55168 TGCGATTTTCTAAAATCGCAACGCGAATTTGGAAAATCGCAA
1 TGCGATAGTC-AAAATCGCGTTGCGAATTTGGAAAATCGCAA
* *
55210 TGCGATAGTCAAAATCGTGTTGCGAATCTGGAAA
1 TGCGATAGTCAAAATCGCGTTGCGAATTTGGAAA
55244 CTGATTTACG
Statistics
Matches: 57, Mismatches: 17, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
40 8 0.14
41 29 0.51
42 20 0.35
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (41 bp):
TGCGATAGTCAAAATCGCGTTGCGAATTTGGAAAATCGCAA
Found at i:56164 original size:16 final size:18
Alignment explanation
Indices: 56145--56188 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 18
56135 AAAAAATAAA
56145 AAATATTTTAAATTA-T-
1 AAATATTTTAAATTATTC
*
56161 AAATA--TAAAATTATTC
1 AAATATTTTAAATTATTC
56177 AAATATTTTAAA
1 AAATATTTTAAA
56189 AATTAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
14 7 0.32
15 1 0.05
16 10 0.45
18 4 0.18
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATATTTTAAATTATTC
Found at i:56170 original size:32 final size:33
Alignment explanation
Indices: 56134--56214 Score: 78
Period size: 32 Copynumber: 2.5 Consensus size: 33
56124 TTTAATTTTT
*
56134 TAAAAAATA-AAAAATATTTT-AAATTATAAATA
1 TAAAAAATATAAAAATATTTTAAAAAT-TAAATA
* **
56166 T-AAAATTATTCAAATATTTTAAAAATTAAATA
1 TAAAAAATATAAAAATATTTTAAAAATTAAATA
*
56198 TAAAAAACAATAAAAAT
1 TAAAAAA-TATAAAAAT
56215 TAAATTATTA
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
31 6 0.16
32 17 0.46
33 8 0.22
34 6 0.16
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (33 bp):
TAAAAAATATAAAAATATTTTAAAAATTAAATA
Found at i:56227 original size:24 final size:23
Alignment explanation
Indices: 56185--56236 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
56175 TCAAATATTT
56185 TAAAAATTAAATATAAAAAACA-A
1 TAAAAATTAAATATAAAAAA-ATA
*
56208 TAAAAATTAAATTATTAAAAAATA
1 TAAAAATTAAA-TATAAAAAAATA
56232 TAAAA
1 TAAAA
56237 TTTTAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 12 0.46
24 14 0.54
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (23 bp):
TAAAAATTAAATATAAAAAAATA
Found at i:56656 original size:9 final size:10
Alignment explanation
Indices: 56629--56655 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
56619 AATTTAATTT
56629 TTATTTTTAA
1 TTATTTTTAA
56639 TTATTTTTAA
1 TTATTTTTAA
56649 TTATTTT
1 TTATTTT
56656 ATATATTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTATTTTTAA
Found at i:63310 original size:37 final size:38
Alignment explanation
Indices: 63206--63326 Score: 153
Period size: 37 Copynumber: 3.3 Consensus size: 38
63196 TATTTTAGGG
*
63206 ACCAAAGATGAAATTCCCATGTGCAAAGTTGACCACCT
1 ACCAAAGATGAAATTCCCATGTGCAAAGTTGGCCACCT
* * * * *
63244 ACCAAAGATG-AATT---TTCTACTAAGTTGGCCACCA
1 ACCAAAGATGAAATTCCCATGTGCAAAGTTGGCCACCT
63278 ACC-AAGATGAAATTCCCATGTGCAAAGTTGGCCACCT
1 ACCAAAGATGAAATTCCCATGTGCAAAGTTGGCCACCT
63315 ACCAAAGATGAA
1 ACCAAAGATGAA
63327 TTTTCAAACT
Statistics
Matches: 67, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
33 6 0.09
34 21 0.31
37 22 0.33
38 18 0.27
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (38 bp):
ACCAAAGATGAAATTCCCATGTGCAAAGTTGGCCACCT
Found at i:67441 original size:31 final size:31
Alignment explanation
Indices: 67357--67476 Score: 120
Period size: 31 Copynumber: 3.8 Consensus size: 31
67347 GAGTCGAGGG
*
67357 TACCTATGTTCTACGGAACATATGGACAGAA
1 TACCTATGTTCTACGGAACATATGGACAGTA
* *
67388 TTACCTATG-TCTTTC-GAGACATATGGATAGTA
1 -TACCTATGTTC-TACGGA-ACATATGGACAGTA
*
67420 TACCTATGTTCTAAGGAACATATGGACAGT-
1 TACCTATGTTCTACGGAACATATGGACAGTA
* * *
67450 TCACCTAGGTTCTTCGGAACCTATGGA
1 T-ACCTATGTTCTACGGAACATATGGA
67477 AAGTTGCCGA
Statistics
Matches: 73, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
30 1 0.01
31 46 0.63
32 26 0.36
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (31 bp):
TACCTATGTTCTACGGAACATATGGACAGTA
Found at i:67519 original size:30 final size:30
Alignment explanation
Indices: 67468--67539 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
67458 GTTCTTCGGA
* * *
67468 ACCTATGGAAAGTTGCCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
67498 ACCTCTGGATAGTTACCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
67528 ACCTCTGGATAG
1 ACCTCTGGATAG
67540 GTCCTGCGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCGAGGATCTTTATG
Found at i:72295 original size:31 final size:32
Alignment explanation
Indices: 72211--72301 Score: 105
Period size: 32 Copynumber: 2.9 Consensus size: 32
72201 GAGTCGAGGG
*
72211 TACCTATGTTCTACGGAACATATGGACAGAAT
1 TACCTATGTTCTAAGGAACATATGGACAGAAT
*** * *
72243 TACCTATG-TCTTTCGAGACATATGGATAGTA-
1 TACCTATGTTCTAAGGA-ACATATGGACAGAAT
72274 TACCTATGTTCTAAGGAACATATGGACA
1 TACCTATGTTCTAAGGAACATATGGACA
72302 ATTCACCTAG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
31 23 0.48
32 25 0.52
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (32 bp):
TACCTATGTTCTAAGGAACATATGGACAGAAT
Found at i:72310 original size:31 final size:30
Alignment explanation
Indices: 72211--72330 Score: 109
Period size: 31 Copynumber: 3.9 Consensus size: 30
72201 GAGTCGAGGG
72211 TACCTATGTTCTACGGAACATATGGACAGAAT
1 TACCTATGTTCTACGGAACATATGGAC--AAT
* * *
72243 TACCTATG-TCTTTC-GAGACATATGGATAGT
1 TACCTATGTTC-TACGGA-ACATATGGACAAT
*
72273 ATACCTATGTTCTAAGGAACATATGGACAAT
1 -TACCTATGTTCTACGGAACATATGGACAAT
* * *
72304 TCACCTAGGTTCTTCGGAACCTATGGA
1 T-ACCTATGTTCTACGGAACATATGGA
72331 AAGTTGCTGA
Statistics
Matches: 71, Mismatches: 11, Indels: 13
0.75 0.12 0.14
Matches are distributed among these distances:
30 3 0.04
31 45 0.63
32 23 0.32
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (30 bp):
TACCTATGTTCTACGGAACATATGGACAAT
Found at i:78669 original size:20 final size:21
Alignment explanation
Indices: 78646--78688 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
78636 CTCAAAATCA
* *
78646 TTTTC-AAAATTTCATTTTGC
1 TTTTCAAAAATCTAATTTTGC
78666 TTTTCAAAAATCTAATTTTGC
1 TTTTCAAAAATCTAATTTTGC
78687 TT
1 TT
78689 GCTTTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.28, C:0.14, G:0.05, T:0.53
Consensus pattern (21 bp):
TTTTCAAAAATCTAATTTTGC
Found at i:78993 original size:62 final size:62
Alignment explanation
Indices: 78917--79038 Score: 208
Period size: 62 Copynumber: 2.0 Consensus size: 62
78907 TTCATCAATT
* * *
78917 CAAGCTGCCACAAATGTCTTCTTCTTACTGATCCCTTATTCTTTAGGAGGGGACAATCATTC
1 CAAGCTGCCACAAATGTCTTATTCTTACTGATCCATTATTCTTTAGGAGAGGACAATCATTC
*
78979 CAAGCTGCCACAAATGTCTTATTCTTACTGATCCATTCTTCTTTAGGAGAGGACAATCAT
1 CAAGCTGCCACAAATGTCTTATTCTTACTGATCCATTATTCTTTAGGAGAGGACAATCAT
79039 ACTTGATAAG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.34
Consensus pattern (62 bp):
CAAGCTGCCACAAATGTCTTATTCTTACTGATCCATTATTCTTTAGGAGAGGACAATCATTC
Found at i:81179 original size:54 final size:54
Alignment explanation
Indices: 81077--81334 Score: 263
Period size: 54 Copynumber: 4.8 Consensus size: 54
81067 TTTTCATAAC
* * * * ** *
81077 ATTAT-AATTTCTTTGGGGTGCACACGTT-GTGCCGATACGATTGTTCATAAACTT
1 ATTATGAATTTC-GTGGGTTGCACAC-TTAGTGTCGATACGGTCATTCATAAACAT
* * * * *
81131 AGTATGAATTAT-GTGGGTGGAACACTTAGTGTCGATATGGTCATTCATAAATAT
1 ATTATGAATT-TCGTGGGTTGCACACTTAGTGTCGATACGGTCATTCATAAACAT
* * * * *
81185 ATTATGAATTTCATGGATTGCACACTTAGTGTTGATACGGTCGTTCATAAAAAT
1 ATTATGAATTTCGTGGGTTGCACACTTAGTGTCGATACGGTCATTCATAAACAT
*
81239 ATTATGAATTTCGTGGGTTGCACACTTAGTGTCGTTACGGTCATTCATAAACAT
1 ATTATGAATTTCGTGGGTTGCACACTTAGTGTCGATACGGTCATTCATAAACAT
* * *
81293 ATTATGAA-TTCTGTGGGTTGTACACTTAGTGCCAATACGGTC
1 ATTATGAATTTC-GTGGGTTGCACACTTAGTGTCGATACGGTC
81335 GTATTATAAA
Statistics
Matches: 168, Mismatches: 31, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
53 6 0.04
54 157 0.93
55 4 0.02
56 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (54 bp):
ATTATGAATTTCGTGGGTTGCACACTTAGTGTCGATACGGTCATTCATAAACAT
Found at i:81331 original size:108 final size:108
Alignment explanation
Indices: 81095--81336 Score: 292
Period size: 108 Copynumber: 2.2 Consensus size: 108
81085 TTCTTTGGGG
* * **
81095 TGCACACGTT-GTGCCGATACGATTGTTCATAAACTTAGTATGAATTATGTGGGTGGAACACTTA
1 TGCACAC-TTAGTGCCGATACGGTCGTTCATAAAAATAGTATGAATTATGTGGGTGGAACACTTA
* *
81159 GTGTCGATATGGTCATTCATAAATATATTATGAATTTCATGGAT
65 GTGTCGATACGGTCATTCATAAACATATTATGAATTTCATGGAT
** * * *
81203 TGCACACTTAGTGTTGATACGGTCGTTCATAAAAATATTATGAATT-TCGTGGGTTGCACACTTA
1 TGCACACTTAGTGCCGATACGGTCGTTCATAAAAATAGTATGAATTAT-GTGGGTGGAACACTTA
* * *
81267 GTGTCGTTACGGTCATTCATAAACATATTATGAA-TTCTGTGGGT
65 GTGTCGATACGGTCATTCATAAACATATTATGAATTTC-ATGGAT
* *
81311 TGTACACTTAGTGCCAATACGGTCGT
1 TGCACACTTAGTGCCGATACGGTCGT
81337 ATTATAAATT
Statistics
Matches: 113, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
107 6 0.05
108 107 0.95
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (108 bp):
TGCACACTTAGTGCCGATACGGTCGTTCATAAAAATAGTATGAATTATGTGGGTGGAACACTTAG
TGTCGATACGGTCATTCATAAACATATTATGAATTTCATGGAT
Found at i:82492 original size:20 final size:20
Alignment explanation
Indices: 82454--82493 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
82444 GATATCTCAT
*
82454 TTGTTTTTTTTATTTTTTCC
1 TTGTTTTTTTTAGTTTTTCC
82474 TTGTTTTTATTT-GTTTTTCC
1 TTGTTTTT-TTTAGTTTTTCC
82494 ACTTATGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.05, C:0.10, G:0.07, T:0.78
Consensus pattern (20 bp):
TTGTTTTTTTTAGTTTTTCC
Found at i:83939 original size:23 final size:23
Alignment explanation
Indices: 83886--83951 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
83876 ACCGGTCTGT
*
83886 TTGAGCTGAGTTAAGCCGTCAAGCCG
1 TTGAGCTGAGTCAAG-C--CAAGCCG
*
83912 CTGAGCTGAGTCAAGCCAAGCCG
1 TTGAGCTGAGTCAAGCCAAGCCG
* *
83935 TTGAGATGAGTCGAGCC
1 TTGAGCTGAGTCAAGCC
83952 GAGCTTCTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 21 0.60
25 1 0.03
26 13 0.37
ACGTcount: A:0.24, C:0.24, G:0.32, T:0.20
Consensus pattern (23 bp):
TTGAGCTGAGTCAAGCCAAGCCG
Found at i:87541 original size:64 final size:65
Alignment explanation
Indices: 87454--87641 Score: 152
Period size: 64 Copynumber: 2.9 Consensus size: 65
87444 GCACTATATA
* * * * * * * *
87454 ATGCATCTATGCAC-CCTTGAATAAATTGAA-TTCCGAATGCATTTTGTGTATCGATGCACAAGG
1 ATGCATCGATGCACTCCTTAAATAAATTGAACAT-CAAATACATTTTATGCATCGATGCACAAAG
87517 C
65 C
* * *
87518 ATGCATCGATGCACTCC-TAAATAATTTGAACATCAAATACATTTTATGCATCGATGTACAAATC
1 ATGCATCGATGCACTCCTTAAATAAATTGAACATCAAATACATTTTATGCATCGATGCACAAAGC
* ** * * **
87582 ATGCATGGATGCACTCC--AGGCTTATTTGAAACATCAAATGTATTTTATGCATCGATGCAC
1 ATGCATCGATGCACTCCTTA-AATAAATTG-AACATCAAATACATTTTATGCATCGATGCAC
87642 CCCTAGTGTA
Statistics
Matches: 102, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
63 1 0.01
64 70 0.69
65 31 0.30
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (65 bp):
ATGCATCGATGCACTCCTTAAATAAATTGAACATCAAATACATTTTATGCATCGATGCACAAAGC
Found at i:92123 original size:19 final size:19
Alignment explanation
Indices: 92101--92139 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
92091 GTTTGTTTGA
92101 TTCATTC-TTCATTGTTCTT
1 TTCATTCATT-ATTGTTCTT
92120 TTCATTCAATTATTGTTCTT
1 TTCATTC-ATTATTGTTCTT
92140 GCTTCATCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 9 0.50
21 2 0.11
ACGTcount: A:0.15, C:0.18, G:0.05, T:0.62
Consensus pattern (19 bp):
TTCATTCATTATTGTTCTT
Found at i:96143 original size:22 final size:20
Alignment explanation
Indices: 96111--96153 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
96101 ATATTGTTTA
* *
96111 TATCATTTAACTTTTAATTT
1 TATCATTTAACATTAAATTT
96131 TATCAATTATAACATTAAATTT
1 TATC-ATT-TAACATTAAATTT
96153 T
1 T
96154 CATTTCTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 3 0.16
22 12 0.63
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (20 bp):
TATCATTTAACATTAAATTT
Found at i:100722 original size:28 final size:28
Alignment explanation
Indices: 100690--100774 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
100680 AAACCTAAAC
100690 TTTAAATACATGAAGACCTTATATTGAA
1 TTTAAATACATGAAGACCTTATATTGAA
* * *
100718 TTTAAA-A-AT-AACAAC--ATA-TAAA
1 TTTAAATACATGAAGACCTTATATTGAA
*
100740 CTTGAAATACATGAAGACCTTATATTGAA
1 -TTTAAATACATGAAGACCTTATATTGAA
100769 TTTAAA
1 TTTAAA
100775 AAGAACAACA
Statistics
Matches: 42, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
22 3 0.07
23 8 0.19
24 1 0.02
25 6 0.14
26 6 0.14
27 1 0.02
28 14 0.33
29 3 0.07
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.33
Consensus pattern (28 bp):
TTTAAATACATGAAGACCTTATATTGAA
Found at i:100748 original size:51 final size:51
Alignment explanation
Indices: 100685--100791 Score: 196
Period size: 51 Copynumber: 2.1 Consensus size: 51
100675 TGCTCAAACC
* *
100685 TAAACTTTAAATACATGAAGACCTTATATTGAATTTAAAAATAACAACATA
1 TAAACTTGAAATACATGAAGACCTTATATTGAATTTAAAAAGAACAACATA
100736 TAAACTTGAAATACATGAAGACCTTATATTGAATTTAAAAAGAACAACATA
1 TAAACTTGAAATACATGAAGACCTTATATTGAATTTAAAAAGAACAACATA
100787 TAAAC
1 TAAAC
100792 GTTAATATTA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.29
Consensus pattern (51 bp):
TAAACTTGAAATACATGAAGACCTTATATTGAATTTAAAAAGAACAACATA
Found at i:101441 original size:12 final size:12
Alignment explanation
Indices: 101426--101471 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
101416 CGGTTTTTTT
*
101426 ACCGGATAAAAA
1 ACCGGTTAAAAA
101438 ACCGGTTTGAAAAAA
1 ACCGG-TT--AAAAA
101453 ACCGGTTAAAAA
1 ACCGGTTAAAAA
101465 ACCGGTT
1 ACCGGTT
101472 TTTATCCGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 17 0.57
13 1 0.03
14 2 0.07
15 10 0.33
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
ACCGGTTAAAAA
Found at i:101453 original size:15 final size:13
Alignment explanation
Indices: 101432--101472 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
101422 TTTTACCGGA
101432 TAAAAAACCGGTT
1 TAAAAAACCGGTT
101445 TGAAAAAAACCGG-T
1 T--AAAAAACCGGTT
101459 TAAAAAACCGGTT
1 TAAAAAACCGGTT
101472 T
1 T
101473 TTATCCGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 2 0.08
15 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (13 bp):
TAAAAAACCGGTT
Found at i:103786 original size:21 final size:21
Alignment explanation
Indices: 103762--103801 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
103752 TTTATTTTAT
103762 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
103783 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
103802 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:103849 original size:33 final size:33
Alignment explanation
Indices: 103796--103894 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
103786 TTTGTTTCAA
103796 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
103828 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
103861 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
103894 T
1 T
103895 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:103923 original size:13 final size:13
Alignment explanation
Indices: 103880--103934 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
103870 TTGGAAGTAT
103880 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
103893 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
103907 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
103920 TTAAGTATTTGAA
1 TTAAGTATTTCAA
103933 TT
1 TT
103935 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:104356 original size:15 final size:15
Alignment explanation
Indices: 104331--104386 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
104321 ATCTGGAATA
*
104331 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
104346 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
*
104361 TAAAAAAACCGGTTTTT
1 T--TAAAACCGGTTTTT
104378 TTAAAACCG
1 TTAAAACCG
104387 AAACCGGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 21 0.62
17 13 0.38
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:104395 original size:21 final size:18
Alignment explanation
Indices: 104350--104383 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
104340 GTTTTTTTAT
104350 AACCGG-TTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
104367 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
104384 CCGAAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:104503 original size:15 final size:17
Alignment explanation
Indices: 104477--104508 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
104467 TTCTATGGGA
104477 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
104493 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
104509 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:109226 original size:182 final size:182
Alignment explanation
Indices: 108882--109544 Score: 901
Period size: 182 Copynumber: 3.6 Consensus size: 182
108872 GTCGATACAA
** ** * *
108882 ATAAAAATGTATCGATCCATAGTAATATAACAGATAAAAATATGACAAAACCAATTTCATTATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAAACCGGTCTCATAATGA
* * * *
108947 C-AAAACTGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTAGATTGAA-ATAAATATCGAC
66 CAAAAAC-GGTAAAGCGCTACCGAATATGTTGAAAGTGTCGA-TA-CTTGAATATAAGTATCGAC
*
109010 ATTTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
128 ACTTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
*
109065 ATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGA-AATG
1 ATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAAACCGGTCTC-ATAATG
* *
109129 ACAAAAACGGTAAAGCGCTACTGAATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACAC
65 ACAAAAACGGTAAAGCGCTACCGAATATGTTGAAAGTGTCGATACTTGAATATAAGTATCGACAC
109194 TTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
130 TTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
* * *
109247 ATAAAAATGTATCGATCCATAACAATATAACATG-TAAAAATATGACAAAACAGGTATCATTATG
1 ATAAAAATGTATCGATCCATAACAATATAACA-GATAAAAATATGACAAAACCGGTCTCATAATG
* * *
109311 A-AAAAACCGGTAAAGAGCTATC-AGATATGTTGAAAGTG-CTGATACTTGGATATAAGTATCGA
65 ACAAAAA-CGGTAAAGCGCTACCGA-ATATGTTGAAAGTGTC-GATACTTGAATATAAGTATCGA
* * * * *
109373 CACTTTTGGAATTTAAAAGTGAAGAAGTAATAGCGTCTATAAAGTATTGATACTTT
127 CACTTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
* * *
109429 ATAAAAATATATCGATCCATAATAATATAACAGATAAAATTATGACAAAACCGGTCTCGA-AATG
1 ATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAAACCGGTCTC-ATAATG
* * * *
109493 ACAAAACCGATAAAGCGCTACCGAATATATTGAAAGTGTCGATACTTTAATA
65 ACAAAAACGGTAAAGCGCTACCGAATATGTTGAAAGTGTCGATACTTGAATA
109545 AGTAAGCGTA
Statistics
Matches: 427, Mismatches: 40, Indels: 27
0.86 0.08 0.05
Matches are distributed among these distances:
181 13 0.03
182 312 0.73
183 96 0.22
184 6 0.01
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.27
Consensus pattern (182 bp):
ATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAAACCGGTCTCATAATGA
CAAAAACGGTAAAGCGCTACCGAATATGTTGAAAGTGTCGATACTTGAATATAAGTATCGACACT
TTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
Found at i:109539 original size:364 final size:365
Alignment explanation
Indices: 108882--109544 Score: 1012
Period size: 364 Copynumber: 1.8 Consensus size: 365
108872 GTCGATACAA
** *
108882 ATAAAAATGTATCGATCCATAGTAATATAACAGATAAAAATATGACAAAACCAATTTCATTATGA
1 ATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAAACCAATATCATTATGA
* * * * *
108947 CAAAACTGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTAGATTGAAATAAATATCGACAT
66 AAAAACCGGTAAAGAGCTACCAGATATGTTGAAAGTATCGATTAGATTGAAATAAATATCGACAC
* * *
109012 TTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAATGTAT
131 TTTTGGAATTTAAAAGAGAAGAAGTAATAGCGCCTATAAAGTATCGATACTTTATAAAAATATAT
* *
109077 CGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAAACGGTAA
196 CGATCCATAACAATATAACAGATAAAAATATGACAAAACCGGTCTCGAAATGACAAAAACGATAA
* *
109142 AGCGCTACTGAATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAA
261 AGCGCTACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAA
109207 AAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
326 AAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
*
109247 ATAAAAATGTATCGATCCATAACAATATAACATG-TAAAAATATGACAAAA-CAGGTATCATTAT
1 ATAAAAATGTATCGATCCATAACAATATAACA-GATAAAAATATGACAAAACCA-ATATCATTAT
* * * * *
109310 GAAAAAACCGGTAAAGAGCTATCAGATATGTTGAAAGT-GCTGA-TA-CTTGGATATAAGTATCG
64 GAAAAAACCGGTAAAGAGCTACCAGATATGTTGAAAGTATC-GATTAGATT-GAAATAAATATCG
* * *
109372 ACACTTTTGGAATTTAAAAGTGAAGAAGTAATAGCGTCTATAAAGTATTGATACTTTATAAAAAT
127 ACACTTTTGGAATTTAAAAGAGAAGAAGTAATAGCGCCTATAAAGTATCGATACTTTATAAAAAT
* * *
109437 ATATCGATCCATAATAATATAACAGATAAAATTATGACAAAACCGGTCTCGAAATGACAAAACCG
192 ATATCGATCCATAACAATATAACAGATAAAAATATGACAAAACCGGTCTCGAAATGACAAAAACG
109502 ATAAAGCGCTACCGAATATATTGAAAGTGTCGATACTTTAATA
257 ATAAAGCGCTACCGAATATATTGAAAGTGTCGATACTTTAATA
109545 AGTAAGCGTA
Statistics
Matches: 267, Mismatches: 27, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
363 2 0.01
364 175 0.66
365 89 0.33
366 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.27
Consensus pattern (365 bp):
ATAAAAATGTATCGATCCATAACAATATAACAGATAAAAATATGACAAAACCAATATCATTATGA
AAAAACCGGTAAAGAGCTACCAGATATGTTGAAAGTATCGATTAGATTGAAATAAATATCGACAC
TTTTGGAATTTAAAAGAGAAGAAGTAATAGCGCCTATAAAGTATCGATACTTTATAAAAATATAT
CGATCCATAACAATATAACAGATAAAAATATGACAAAACCGGTCTCGAAATGACAAAAACGATAA
AGCGCTACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGAATTTAA
AAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTT
Found at i:110673 original size:199 final size:198
Alignment explanation
Indices: 110203--111634 Score: 2177
Period size: 199 Copynumber: 7.3 Consensus size: 198
110193 GATATTGTAG
* * * * *
110203 AAATATACTGG-TTAATTAGAAAATAGGCCTACATAATGTATCGACACTTTTTAAATTTATGTCG
1 AAATATACTGGTTTTATGAGAAAATAGGTCTACATAATGTTTCGACACTTTTTAAATTTGTGTCG
* *
110267 ATATTTTTTGTCCAGAATGAATGATAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATT
66 ATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATT
*
110332 GTATC-ACCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
131 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAA-CG
110396 GTAT
195 GTAT
* *
110400 AAATATA-TCGTTTTATGAGAAAATAGGTCTACATAATGTTTCAACACTTTTTAAATTTGTGTCG
1 AAATATACTGGTTTTATGAGAAAATAGGTCTACATAATGTTTCGACACTTTTTAAATTTGTGTCG
* * *
110464 ATACTTTTTGTCCAAAATGAAAGACAAACTAGGTGCATGCATAAAGTGTCGATACATTTAAAATT
66 ATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATT
* *
110529 GTATCGATCCCAAAAGCATCGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTAATCG
131 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAA-CG
*
110594 GTAG
195 GTAT
110598 AAATATACTGGTTTTATGAGAAAATAGGTCTACATAATGTTTCGACACTTTTTAAATTTGTGTCG
1 AAATATACTGGTTTTATGAGAAAATAGGTCTACATAATGTTTCGACACTTTTTAAATTTGTGTCG
* *
110663 ATATTTTTTGTCCATAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATT
66 ATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATT
* *
110728 GTATCGACCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCA
131 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAA-CG
*
110793 ATAT
195 GTAT
* * * * *
110797 AAATATATTGGTTTTATGAGAAAATATGTTTACATAATGTTTCGACACTTTTTAAATTGGTGTTG
1 AAATATACTGGTTTTATGAGAAAATAGGTCTACATAATGTTTCGACACTTTTTAAATTTGTGTCG
110862 ATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATT
66 ATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATT
* * *
110927 GTATCGACCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCA
131 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAA-CG
*
110992 ATAT
195 GTAT
* * * *
110996 AAATATAATGGTTTTATGAGAAAATATGTTTACATAATGTTTCGACAC--TTTAAATTGGTGTCG
1 AAATATACTGGTTTTATGAGAAAATAGGTCTACATAATGTTTCGACACTTTTTAAATTTGTGTCG
*
111059 ATACTTTTTGTCCAGAATGAATGACAAACTAGGTACACGCATAAAGTGTCGATAC------AATT
66 ATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATT
*
111118 GTATCGATCCCAAAAACATCGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTAACTG
131 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAAC-G
* *
111183 ATAG
195 GTAT
* * *
111187 AAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGTTTCGACACTTTTAAAATTTTTGTCG
1 AAATATACTGGTTTTATGAGAAAATAGGTCTACATAATGTTTCGACACTTTTTAAATTTGTGTCG
* *
111252 ATACTTTTTGTCCAGAATAAATGACAAACTAGATGCACGCATAAAGTGTCGATACATTTAAAATT
66 ATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATT
* * **
111317 GTATCGATCCAAAAAACATCGAAACCGATAATTACAATGTAATAGAAAAATTTACAATGTAACGG
131 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAAC-G
111382 GTAT
195 GTAT
* * *
111386 AAATATACTAGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTATGTCG
1 AAATATACTGGTTTTATGAGAAAATAGGTCTACATAATGTTTCGACACTTTTTAAATTTGTGTCG
* * * *
111451 ATACTTTTTGTCCATAATGAATGACAAACAAGGTGCACGCAAAAAGTGTCGATATATTTAAAATT
66 ATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATT
* *
111516 GTATCGATCCTAAAAACATCGAAATCGATAATTATAATGTAATAGGTAAATTTACAATGTAACTG
131 GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAAC-G
111581 GTAT
195 GTAT
* * *
111585 AAATATAGC-GTTTTTATGAGAAAATAAGTCTACATAATGTATCGACACTT
1 AAATATA-CTGGTTTTATGAGAAAATAGGTCTACATAATGTTTCGACACTT
111635 CGACACTTTT
Statistics
Matches: 1140, Mismatches: 82, Indels: 24
0.91 0.07 0.02
Matches are distributed among these distances:
190 1 0.00
191 110 0.10
193 64 0.06
196 2 0.00
197 187 0.16
198 65 0.06
199 710 0.62
200 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (198 bp):
AAATATACTGGTTTTATGAGAAAATAGGTCTACATAATGTTTCGACACTTTTTAAATTTGTGTCG
ATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATT
GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACGG
TAT
Found at i:111296 original size:589 final size:590
Alignment explanation
Indices: 110203--111634 Score: 2253
Period size: 589 Copynumber: 2.4 Consensus size: 590
110193 GATATTGTAG
* * * *
110203 AAATATACT-GGTTAATTAGAAAATAGGCCTACATAATGTATCGACACTTTTTAAATTTATGTCG
1 AAATATACTAGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTATGTCG
* *
110267 ATATTTTTTGTCCAGAATGAATGATAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATT
66 ATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATT
110332 GTATC-ACCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
131 GTATCGACCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
* * * *
110396 GTATAAATAT-ATCGTTTTATGAGAAAATAGGTCTACATAATGTTTCAACACTTTTTAAATTTGT
196 GTATAAATATAATGGTTTTATGAGAAAATAAGTCTACATAATGTTTCGACAC--TTTAAATTGGT
* *
110460 GTCGATACTTTTTGTCCAAAATGAAAGACAAACTAGGTGCATGCATAAAGTGTCGATACATTTAA
259 GTCGATACTTTTTGTCCAAAATGAAAGACAAACTAGGTACACGCATAAAGTGTCGATAC-----A
*
110525 AATTGTATCGATCCCAAAAGCATCGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTA
319 AATTGTATCGATCCCAAAAACATCGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTA
* * *
110590 ATCGGTAGAAATATACTGGTTTTATGAGAAAATAGGTCTACATAATGTTTCGACACTTTTTAAAT
384 ATCGATAGAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGTTTCGACACTTTTAAAAT
* * * *
110655 TTGTGTCGATATTTTTTGTCCATAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACAT
449 TTGTGTCGATACTTTTTGTCCAGAATAAATGACAAACTAGATGCACGCATAAAGTGTCGATACAT
* * **
110720 TTAAAATTGTATCGACCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAA
514 TTAAAATTGTATCGACCCAAAAAACATCGAAACCGATAATTACAATGTAATAGAAAAATTTACAA
110785 TGTAACCAATAT
579 TGTAACCAATAT
* * * * * ** *
110797 AAATATATTGGTTTTATGAGAAAATATGTTTACATAATGTTTCGACACTTTTTAAATTGGTGTTG
1 AAATATACTAGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTATGTCG
110862 ATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATT
66 ATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATT
* *
110927 GTATCGACCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCA
131 GTATCGACCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
* * *
110992 ATATAAATATAATGGTTTTATGAGAAAATATGTTTACATAATGTTTCGACACTTTAAATTGGTGT
196 GTATAAATATAATGGTTTTATGAGAAAATAAGTCTACATAATGTTTCGACACTTTAAATTGGTGT
* *
111057 CGATACTTTTTGTCCAGAATGAATGACAAACTAGGTACACGCATAAAGTGTCGATAC-AATTGTA
261 CGATACTTTTTGTCCAAAATGAAAGACAAACTAGGTACACGCATAAAGTGTCGATACAAATTGTA
111121 TCGATCCCAAAAACATCGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTAA-CTGAT
326 TCGATCCCAAAAACATCGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTAATC-GAT
*
111185 AGAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGTTTCGACACTTTTAAAATTTTTGT
390 AGAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGTTTCGACACTTTTAAAATTTGTGT
111250 CGATACTTTTTGTCCAGAATAAATGACAAACTAGATGCACGCATAAAGTGTCGATACATTTAAAA
455 CGATACTTTTTGTCCAGAATAAATGACAAACTAGATGCACGCATAAAGTGTCGATACATTTAAAA
*
111315 TTGTATCGATCCAAAAAACATCGAAACCGATAATTACAATGTAATAGAAAAATTTACAATGTAAC
520 TTGTATCGACCCAAAAAACATCGAAACCGATAATTACAATGTAATAGAAAAATTTACAATGTAAC
***
111380 GGGTAT
585 CAATAT
111386 AAATATACTAGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTATGTCG
1 AAATATACTAGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTATGTCG
* * * *
111451 ATACTTTTTGTCCATAATGAATGACAAACAAGGTGCACGCAAAAAGTGTCGATATATTTAAAATT
66 ATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATT
* * * *
111516 GTATCGATCCTAAAAACATCGAAATCGATAATTATAATGTAATAGGTAAATTTACAATGTAACTG
131 GTATCGACCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
** * *
111581 GTATAAATATAGCGTTTTTATGAGAAAATAAGTCTACATAATGTATCGACACTT
196 GTATAAATATAATGGTTTTATGAGAAAATAAGTCTACATAATGTTTCGACACTT
111635 CGACACTTTT
Statistics
Matches: 767, Mismatches: 67, Indels: 13
0.91 0.08 0.02
Matches are distributed among these distances:
588 1 0.00
589 477 0.62
594 8 0.01
595 178 0.23
596 66 0.09
597 37 0.05
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (590 bp):
AAATATACTAGTTTTATGAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTATGTCG
ATACTTTTTGTCCAGAATGAATGACAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATT
GTATCGACCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCG
GTATAAATATAATGGTTTTATGAGAAAATAAGTCTACATAATGTTTCGACACTTTAAATTGGTGT
CGATACTTTTTGTCCAAAATGAAAGACAAACTAGGTACACGCATAAAGTGTCGATACAAATTGTA
TCGATCCCAAAAACATCGAAACCGATAATTACAATGTAATAGGTAAATTTACAATGTAATCGATA
GAAATATACCGGTTTTATGAGAAAATAGGTCTACATAATGTTTCGACACTTTTAAAATTTGTGTC
GATACTTTTTGTCCAGAATAAATGACAAACTAGATGCACGCATAAAGTGTCGATACATTTAAAAT
TGTATCGACCCAAAAAACATCGAAACCGATAATTACAATGTAATAGAAAAATTTACAATGTAACC
AATAT
Found at i:112380 original size:13 final size:13
Alignment explanation
Indices: 112356--112395 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
112346 ATATAATAGT
112356 TGCGCGTCATAAA
1 TGCGCGTCATAAA
* *
112369 TGCGTGTTATAAA
1 TGCGCGTCATAAA
112382 TGCGCGTCATAAA
1 TGCGCGTCATAAA
112395 T
1 T
112396 TTATGACGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (13 bp):
TGCGCGTCATAAA
Found at i:114109 original size:22 final size:22
Alignment explanation
Indices: 114081--114132 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
114071 AACGGTCAAC
114081 GGTCAACGATCCAGTCGGGTCG
1 GGTCAACGATCCAGTCGGGTCG
* **
114103 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGATCCAGTCGGGTCG
114125 GGTCAACG
1 GGTCAACG
114133 GTCGGGTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.15, C:0.25, G:0.42, T:0.17
Consensus pattern (22 bp):
GGTCAACGATCCAGTCGGGTCG
Found at i:114115 original size:12 final size:12
Alignment explanation
Indices: 114098--114141 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
114088 GATCCAGTCG
114098 GGTCGGGTCAAC
1 GGTCGGGTCAAC
*
114110 GGTCGGGTC--G
1 GGTCGGGTCAAC
114120 GGTCGGGTCAAC
1 GGTCGGGTCAAC
114132 GGTCGGGTCA
1 GGTCGGGTCA
114142 GACCGGTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 9 0.32
12 19 0.68
ACGTcount: A:0.11, C:0.23, G:0.48, T:0.18
Consensus pattern (12 bp):
GGTCGGGTCAAC
Found at i:114133 original size:22 final size:22
Alignment explanation
Indices: 114094--114140 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
114084 CAACGATCCA
114094 GTCGGGTCGGGTCAACGGTCGG
1 GTCGGGTCGGGTCAACGGTCGG
114116 GTCGGGTCGGGTCAACGGTCGG
1 GTCGGGTCGGGTCAACGGTCGG
114138 GTC
1 GTC
114141 AGACCGGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (22 bp):
GTCGGGTCGGGTCAACGGTCGG
Found at i:114155 original size:9 final size:9
Alignment explanation
Indices: 114137--114206 Score: 59
Period size: 9 Copynumber: 7.3 Consensus size: 9
114127 TCAACGGTCG
*
114137 GGTCAGACC
1 GGTCAAACC
114146 GGTCAAACC
1 GGTCAAACC
*
114155 GGTTCAGACC
1 GG-TCAAACC
114165 GGTCAAACC
1 GGTCAAACC
*
114174 GGTCAGAACT
1 GGTCA-AACC
*
114184 GGTTGAAAACC
1 GG-T-CAAACC
*
114195 GGTTAAACC
1 GGTCAAACC
114204 GGT
1 GGT
114207 TTCCAGTAGC
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 29 0.58
10 14 0.28
11 6 0.12
12 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.29, T:0.17
Consensus pattern (9 bp):
GGTCAAACC
Found at i:114163 original size:19 final size:18
Alignment explanation
Indices: 114137--114180 Score: 79
Period size: 19 Copynumber: 2.4 Consensus size: 18
114127 TCAACGGTCG
114137 GGTCAGACCGGTCAAACC
1 GGTCAGACCGGTCAAACC
114155 GGTTCAGACCGGTCAAACC
1 GG-TCAGACCGGTCAAACC
114174 GGTCAGA
1 GGTCAGA
114181 ACTGGTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.27, C:0.30, G:0.30, T:0.14
Consensus pattern (18 bp):
GGTCAGACCGGTCAAACC
Found at i:121432 original size:22 final size:22
Alignment explanation
Indices: 121377--121436 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
121367 GAAAGTCAAC
**
121377 GGTCAACGGTCCAGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
*
121399 GGTTAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
121421 GGTCAACGGTCGGGTC
1 GGTCAACGGTCGGGTC
121437 AGACCGGTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.12, C:0.23, G:0.45, T:0.20
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:121436 original size:12 final size:12
Alignment explanation
Indices: 121394--121437 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
121384 GGTCCAGTCG
*
121394 GGTCGGGTTAAC
1 GGTCGGGTCAAC
*
121406 GGTCGGGTC--G
1 GGTCGGGTCAAC
121416 GGTCGGGTCAAC
1 GGTCGGGTCAAC
121428 GGTCGGGTCA
1 GGTCGGGTCA
121438 GACCGGTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 9 0.33
12 18 0.67
ACGTcount: A:0.11, C:0.20, G:0.48, T:0.20
Consensus pattern (12 bp):
GGTCGGGTCAAC
Found at i:121451 original size:9 final size:9
Alignment explanation
Indices: 121433--121502 Score: 68
Period size: 9 Copynumber: 7.3 Consensus size: 9
121423 TCAACGGTCG
*
121433 GGTCAGACC
1 GGTCAAACC
121442 GGTCAAACC
1 GGTCAAACC
*
121451 GGTTCAGACC
1 GG-TCAAACC
121461 GGTCAAACC
1 GGTCAAACC
121470 GGTCAGAACC
1 GGTCA-AACC
*
121480 GGTTAAAAACC
1 GG-T-CAAACC
*
121491 GGTTAAACC
1 GGTCAAACC
121500 GGT
1 GGT
121503 TTCCAGTAGC
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
9 29 0.56
10 15 0.29
11 7 0.13
12 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.27, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:121459 original size:19 final size:18
Alignment explanation
Indices: 121433--121482 Score: 82
Period size: 19 Copynumber: 2.7 Consensus size: 18
121423 TCAACGGTCG
121433 GGTCAGACCGGTCAAACC
1 GGTCAGACCGGTCAAACC
121451 GGTTCAGACCGGTCAAACC
1 GG-TCAGACCGGTCAAACC
121470 GGTCAGAACCGGT
1 GGTCAG-ACCGGT
121483 TAAAAACCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.20
19 24 0.80
ACGTcount: A:0.26, C:0.30, G:0.30, T:0.14
Consensus pattern (18 bp):
GGTCAGACCGGTCAAACC
Found at i:121501 original size:20 final size:21
Alignment explanation
Indices: 121465--121503 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
121455 CAGACCGGTC
121465 AAACCGGTCAGAACCGGTTAA
1 AAACCGGTCAGAACCGGTTAA
*
121486 AAACCGGTTA-AACCGGTT
1 AAACCGGTCAGAACCGGTT
121504 TCCAGTAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (21 bp):
AAACCGGTCAGAACCGGTTAA
Found at i:123557 original size:13 final size:13
Alignment explanation
Indices: 123539--123585 Score: 76
Period size: 13 Copynumber: 3.6 Consensus size: 13
123529 TGCATCATAA
*
123539 ATTTATGACGCAC
1 ATTTATGACGCGC
*
123552 ATTTATGACACGC
1 ATTTATGACGCGC
123565 ATTTATGACGCGC
1 ATTTATGACGCGC
123578 ATTTATGA
1 ATTTATGA
123586 ATTACATTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:123676 original size:85 final size:85
Alignment explanation
Indices: 123565--123722 Score: 262
Period size: 85 Copynumber: 1.9 Consensus size: 85
123555 TATGACACGC
* *
123565 ATTTATGACGCGCATTTATGAATTACATTGCACGTCATTGAAGCCCCCGTCATAAATGAAGATGA
1 ATTTATGACACGCATTTATGAATTACATTGCACGTCATTGAAGCCCCCGTCATAAATGAAAATGA
123630 CACACATTTGTGTGTCATAA
66 CACACATTTGTGTGTCATAA
* ** *
123650 ATTTATGACACGCATTTATGACTTACATTGCGTGTCATTGAATCCCCCGTCATAAATGAAAATGA
1 ATTTATGACACGCATTTATGAATTACATTGCACGTCATTGAAGCCCCCGTCATAAATGAAAATGA
123715 CACACATT
66 CACACATT
123723 CATGTGTCGT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 67 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (85 bp):
ATTTATGACACGCATTTATGAATTACATTGCACGTCATTGAAGCCCCCGTCATAAATGAAAATGA
CACACATTTGTGTGTCATAA
Found at i:128889 original size:135 final size:135
Alignment explanation
Indices: 128662--128954 Score: 514
Period size: 135 Copynumber: 2.2 Consensus size: 135
128652 ATTACGTTAC
* *
128662 ATAAGCTCTACCTAATATGTTATTATGCTTGATAATGTTTCTAGTAATTAATCGGTTATGCTATC
1 ATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTCTAGTAATTAACCGGTTATGCTATC
* *
128727 CTTGGTAACATTTTAGGTGTTTACCTAATATATTGTAATAGCAAATTAAGTAATTAACCTATTTT
66 CTTGATAACATTTTAGGTGTTTACCTAATATATTGTAATAACAAATTAAGTAATTAACCTATTTT
128792 ATTAT
131 ATTAT
*
128797 ATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCTAGTAATTAACCGGTTATGCTATC
1 ATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTCTAGTAATTAACCGGTTATGCTATC
*
128862 CTTGATAACATTTTAGGTGTTTACCTAATATGTTGTAATAACAAATTAAGTAATTAACCTATTTT
66 CTTGATAACATTTTAGGTGTTTACCTAATATATTGTAATAACAAATTAAGTAATTAACCTATTTT
128927 ATTAT
131 ATTAT
* *
128932 ATAAGCGCTACCTATTACGTTAT
1 ATAAGCGCTACCTAATATGTTAT
128955 ATAAGCGCTA
Statistics
Matches: 150, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
135 150 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (135 bp):
ATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTCTAGTAATTAACCGGTTATGCTATC
CTTGATAACATTTTAGGTGTTTACCTAATATATTGTAATAACAAATTAAGTAATTAACCTATTTT
ATTAT
Found at i:128944 original size:23 final size:23
Alignment explanation
Indices: 128918--128968 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
128908 TAAGTAATTA
**
128918 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
*
128941 ACCTATTACGTTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
128964 ACCTA
1 ACCTA
128969 ATATGTTATT
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:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:128976 original size:23 final size:23
Alignment explanation
Indices: 128928--128977 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
128918 ACCTATTTTA
*
128928 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
*
128951 TTATATAAGCGCTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
128974 TTAT
1 TTAT
128978 TGTGCTTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:129071 original size:158 final size:158
Alignment explanation
Indices: 128783--129135 Score: 571
Period size: 158 Copynumber: 2.2 Consensus size: 158
128773 TAAGTAATTA
** * * *
128783 ACCTATTTTATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCTAGTAATTAA
1 ACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGAAAATGTTTCCAGAAATTAA
* * *
128848 CCGGTTATGCTATCCTTGATAACATTTTAGGTGTTTACCTAATATGTTGTAATAACAAATTAAGT
66 CCGGTTATACTATCATTGATAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAGT
*
128913 AATTAACCTATTTTATTATATAAGCGCT
131 AATTAACCTATTTTATTATATAAGCGAT
*
128941 ACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGCTTGAAAATGTTTCCAGAAATTAA
1 ACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGAAAATGTTTCCAGAAATTAA
* * *
129006 CCGGTTATATTATCATTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAACGAATTAAGT
66 CCGGTTATACTATCATTGATAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAGT
*
129071 AATTAATCTATTTTATTATATAAGCGAT
131 AATTAACCTATTTTATTATATAAGCGAT
*
129099 ACCTATTACATTATATAAGCGTTACCTAATATGTTAT
1 ACCTATTACATTATATAAGCGCTACCTAATATGTTAT
129136 CGTATACATT
Statistics
Matches: 179, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
158 179 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (158 bp):
ACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGAAAATGTTTCCAGAAATTAA
CCGGTTATACTATCATTGATAACATTTTAGGCGTTTACCTAATATGTTGTAATAACAAATTAAGT
AATTAACCTATTTTATTATATAAGCGAT
Found at i:129135 original size:23 final size:23
Alignment explanation
Indices: 129085--129129 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
129075 AATCTATTTT
*
129085 ATTATATAAGCGATACCTATTAC
1 ATTATATAAGCGATACCTAATAC
*
129108 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGATACCTAATA
129130 TGTTATCGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGATACCTAATAC
Found at i:132622 original size:23 final size:23
Alignment explanation
Indices: 132584--132628 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
132574 ATTTTGGCTT
132584 TAAAATGGTTTGAAA-TATTTTG
1 TAAAATGGTTTGAAATTATTTTG
*
132606 TAAAATCGTTTTGAAATTATTTT
1 TAAAAT-GGTTTGAAATTATTTT
132629 AAGATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 8 0.40
24 6 0.30
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (23 bp):
TAAAATGGTTTGAAATTATTTTG
Found at i:135252 original size:22 final size:23
Alignment explanation
Indices: 135182--135243 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
135172 CCAGAACCCC
* *
135182 AAGGGGGTATCGATTCCCC-T-A
1 AAGGGGGAATCGGTTCCCCTTCA
135203 AAGGGGGAATCGGTTCCCCTTCA
1 AAGGGGGAATCGGTTCCCCTTCA
135226 AAGGGGGAATCGGTTCCC
1 AAGGGGGAATCGGTTCCC
135244 TCATGAGGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 17 0.46
22 1 0.03
23 19 0.51
ACGTcount: A:0.23, C:0.24, G:0.32, T:0.21
Consensus pattern (23 bp):
AAGGGGGAATCGGTTCCCCTTCA
Found at i:140945 original size:20 final size:20
Alignment explanation
Indices: 140894--140948 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
140884 TGGAGTGTGG
*
140894 GGGGAATCGGTACCCCTAAT
1 GGGGAATCGGTTCCCCTAAT
*
140914 AGGGAATCGGTTCCCCTAAT
1 GGGGAATCGGTTCCCCTAAT
140934 GGGGAATCGGTTCCC
1 GGGGAATCGGTTCCC
140949 TAAGTGTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.22, C:0.25, G:0.31, T:0.22
Consensus pattern (20 bp):
GGGGAATCGGTTCCCCTAAT
Found at i:143035 original size:30 final size:30
Alignment explanation
Indices: 143000--143089 Score: 128
Period size: 30 Copynumber: 2.9 Consensus size: 30
142990 GAAGGACTTA
*
143000 TCCATATGTTCCGAAGAACATAGGTAACTG
1 TCCATATGTTCCGAAGGACATAGGTAACTG
*
143030 TCCATATGTCCCGAAGGACATAGGTAATCCTG
1 TCCATATGTTCCGAAGGACATAGGTAA--CTG
143062 TCCATATG-TCCTGAAGGACATAGGTAAC
1 TCCATATGTTCC-GAAGGACATAGGTAAC
143090 CTCGACTCTT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
30 26 0.48
31 2 0.04
32 26 0.48
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (30 bp):
TCCATATGTTCCGAAGGACATAGGTAACTG
Found at i:143068 original size:32 final size:30
Alignment explanation
Indices: 143000--143089 Score: 135
Period size: 32 Copynumber: 2.9 Consensus size: 30
142990 GAAGGACTTA
* *
143000 TCCATATGTTCCGAAGAACATAGGTAACTG
1 TCCATATGTCCCGAAGGACATAGGTAACTG
143030 TCCATATGTCCCGAAGGACATAGGTAATCCTG
1 TCCATATGTCCCGAAGGACATAGGTAA--CTG
*
143062 TCCATATGTCCTGAAGGACATAGGTAAC
1 TCCATATGTCCCGAAGGACATAGGTAAC
143090 CTCGACTCTT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
30 26 0.47
32 29 0.53
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (30 bp):
TCCATATGTCCCGAAGGACATAGGTAACTG
Found at i:145661 original size:2 final size:2
Alignment explanation
Indices: 145654--145680 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
145644 GTGATTAAAC
145654 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 T
145681 TAATTATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:145732 original size:16 final size:16
Alignment explanation
Indices: 145686--145733 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
145676 TATATTAATT
*
145686 ATATCGAATATAATATA
1 ATAT-GAATATAATTTA
* * *
145703 ATATTAAAAGAATTTA
1 ATATGAATATAATTTA
145719 ATATGAATATAATTT
1 ATATGAATATAATTT
145734 TTTAATAAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (16 bp):
ATATGAATATAATTTA
Found at i:147585 original size:201 final size:196
Alignment explanation
Indices: 147191--147590 Score: 714
Period size: 201 Copynumber: 2.0 Consensus size: 196
147181 TGAATAAAAG
147191 TTGTTCACCAAATGGAGGAGTTACGTGAGATGTAATTAGTAAGGGTACTTACCTACATAACCATT
1 TTGTTCACCAAATGGAGGAGTTACGT-AGATGTAATTAGTAAGGGTACTTACCTACATAACCATT
147256 CTCTTAAAGAAAAGCCAAAGTTGATTGAGGAAAAGTGATATATGGATCCTCATCATTAGAATACT
65 CTCTTAAAGAAAAGCCAAAGTTGATTGAGGAAAAGTGATATATGGATCCTCATCATTAGAATACT
147321 TTCAAGAAGTTTTCCGAAATTAAAACATGAGGGTTTTTTTAATTTTGAATAAAATAGTGGGAGTA
130 TTCAAGAAGTTTTCCGAAATTAAAACATGAGGGTTTTTTTAATTTTGAATAAAATAGTGGGAGTA
147386 AT
195 AT
147388 TTGTTCACCAAATGGAGGAGTTACGT-GATGTAATTAGTAAGGTGTTACTTACCTACATAACCAT
1 TTGTTCACCAAATGGAGGAGTTACGTAGATGTAATTAGTAAGG-G-TACTTACCTACATAACCAT
147452 TCTCTTAAAAGAAAAGCCAAAGTTGATTGAGGAAAATAGTGATATATGGATCCTCACTCATTAGA
64 TCTCTT-AAAGAAAAGCCAAAGTTGATTGAGG-AAA-AGTGATATATGGATCCTCA-TCATTAGA
147517 ATACTTTCAAGAAGTTTTTCCGAAATTAAAACATGAGGG-TTTTTTAATTTTGAATAAAATAGTG
125 ATACTTTCAAGAAG-TTTTCCGAAATTAAAACATGAGGGTTTTTTTAATTTTGAATAAAATAGTG
147581 GGAGTAAT
189 GGAGTAAT
147589 TT
1 TT
147591 ATTAATAAAG
Statistics
Matches: 196, Mismatches: 0, Indels: 10
0.95 0.00 0.05
Matches are distributed among these distances:
195 16 0.08
196 1 0.01
197 51 0.26
198 25 0.13
199 3 0.02
200 19 0.10
201 57 0.29
202 24 0.12
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (196 bp):
TTGTTCACCAAATGGAGGAGTTACGTAGATGTAATTAGTAAGGGTACTTACCTACATAACCATTC
TCTTAAAGAAAAGCCAAAGTTGATTGAGGAAAAGTGATATATGGATCCTCATCATTAGAATACTT
TCAAGAAGTTTTCCGAAATTAAAACATGAGGGTTTTTTTAATTTTGAATAAAATAGTGGGAGTAA
T
Found at i:148005 original size:45 final size:45
Alignment explanation
Indices: 147941--148030 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
147931 GAGGATATGG
147941 TTGCATATGAGATGATTCAAAATCTCAAGGAATTATATGAGGGGA
1 TTGCATATGAGATGATTCAAAATCTCAAGGAATTATATGAGGGGA
147986 TTGCATATGAGATGATTCAAAATCTCAAGGAATTATATGAGGGGA
1 TTGCATATGAGATGATTCAAAATCTCAAGGAATTATATGAGGGGA
148031 AAGCACATCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (45 bp):
TTGCATATGAGATGATTCAAAATCTCAAGGAATTATATGAGGGGA
Found at i:150558 original size:37 final size:37
Alignment explanation
Indices: 150482--150558 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 37
150472 TTTTTATATT
* *
150482 TTTAATTTTGTATAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTATAAAAAAATATATAAATATTATCAA
*
150519 TTTAATTTT-T-TAAAGAAAATATATAAATATTTTACAA
1 TTTAATTTTGTATAAA-AAAATATATAAATATTAT-CAA
150556 TTT
1 TTT
150559 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 4 0.11
36 17 0.49
37 14 0.40
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (37 bp):
TTTAATTTTGTATAAAAAAATATATAAATATTATCAA
Found at i:151722 original size:28 final size:28
Alignment explanation
Indices: 151689--151755 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
151679 AACCGGTGTA
* *
151689 AATTGAACTGGACTAGACAACGATTCTC
1 AATTGAACTGAACTAGACAACGATTCCC
* * *
151717 GATTGAAGC-AAACTAGACAGCGATTCCC
1 AATTGAA-CTGAACTAGACAACGATTCCC
151745 AATTGAACTGA
1 AATTGAACTGA
151756 TTGAACCAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
27 1 0.03
28 28 0.93
29 1 0.03
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.22
Consensus pattern (28 bp):
AATTGAACTGAACTAGACAACGATTCCC
Found at i:152729 original size:25 final size:25
Alignment explanation
Indices: 152699--152746 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
152689 GATAATAATA
152699 AATTTAT-AAATATTTTAAAGAGAGG
1 AATTTATGAAAT-TTTTAAAGAGAGG
152724 AATTTATGAAATTTTTAAAGAGA
1 AATTTATGAAATTTTTAAAGAGA
152747 TAAAATAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.38
Consensus pattern (25 bp):
AATTTATGAAATTTTTAAAGAGAGG
Found at i:153499 original size:17 final size:18
Alignment explanation
Indices: 153466--153499 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
153456 CCGTTATTAG
153466 TGAACCGGTCGGAACCGT
1 TGAACCGGTCGGAACCGT
*
153484 TGAACCGTTC-GAACCG
1 TGAACCGGTCGGAACCG
153500 GACCGGCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.29, G:0.29, T:0.18
Consensus pattern (18 bp):
TGAACCGGTCGGAACCGT
Found at i:156243 original size:3 final size:3
Alignment explanation
Indices: 156237--156262 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
156227 CACCAACGAC
156237 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
156263 AGAGGAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:160113 original size:55 final size:54
Alignment explanation
Indices: 160069--160710 Score: 381
Period size: 55 Copynumber: 11.7 Consensus size: 54
160059 TGAATGACGG
* * * * **
160069 GTCCGCTCCCTATCCCTTAAGGGAGTATAAGACTCGAACAATCTTCAGCAAATGT
1 GTCCGCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTT-TGAAAACAT
** * *
160124 GTATGCTCCCTATTCTTTCATGGAGTATAAGACTCGAACAATC-TTGAACAAACAT
1 GTCCGCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTTG-A-AAACAT
* * * * *
160179 GTCTGCTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAAACGT
1 GTCCGCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTT-TGAAAACAT
* * ** * * **
160234 GTCCACTCCTTATTCCTTCAGAAAGCATAGGACTCGAACAATCTTCAACAAACAT
1 GTCCGCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTTGA-AAACAT
* * *
160289 GTCCGCTCCCGATTCATTCAGGGAGTATAAGACTCAAACAATC-TTGAATAAACAT
1 GTCCGCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTTG-A-AAACAT
** * * * *
160344 GTCTACTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAAACGT
1 GTCCGCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTT-TGAAAACAT
** * * * * ** *
160399 GTCTACTCCTTATTCATTCAGGGAGTATAAAACTCGAACAATATTCAACAAACGT
1 GTCCGCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTTGA-AAACAT
* * * * * * * * ** *
160454 GTCCACTCCTTATTCCATCAGAGAGCATAGGACTTGAACATTCTTCAACAAACGT
1 GTCCGCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTTGA-AAACAT
* * * * ** *
160509 GTCCACTCCCTATTCCTTCAGAGAGTATAGGAATCGAACAATCTTCAACAAACGT
1 GTCCGCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTTGA-AAACAT
* ** * * ** * * ** *
160564 ATATGTTCCCCATTCCTTCAAAGAGTATAGGACTCAAACAATCTTCAAAAAACGT
1 GTCCGCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTT-TGAAAACAT
* * * * ** **
160619 GTCTGATCCCTATTCCTTCAGAGAGTATAGGACTCGAGA-AATCTTCAACAAATGT
1 GTCCGCTCCCTATTCCTTCAGGGAGTATAAGACTCGA-ACAATCTTTGA-AAACAT
* * * * *
160674 GTCTGCTCCATATTCCTACAGAGAGTATATGACTCGA
1 GTCCGCTCCCTATTCCTTCAGGGAGTATAAGACTCGA
160711 TCTTCATAAA
Statistics
Matches: 482, Mismatches: 93, Indels: 24
0.80 0.16 0.04
Matches are distributed among these distances:
53 1 0.00
54 4 0.01
55 470 0.98
56 5 0.01
57 2 0.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (54 bp):
GTCCGCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTTGAAAACAT
Found at i:160248 original size:110 final size:109
Alignment explanation
Indices: 160073--160710 Score: 675
Period size: 110 Copynumber: 5.8 Consensus size: 109
160063 TGACGGGTCC
* * * * * *
160073 GCTCCCTATCCCTTAAGGGAGTATAAGACTCGAACAATCTTCAGCAAATGTGTATGCTCCCTATT
1 GCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCTACTCCCTATT
* * * *
160138 CTTTCATGGAGTATAAGACTCGAACAATCTTGAACAAACATGTCT
66 CCTTCA-GGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCT
* * * *
160183 GCTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAAACGTGTCCACTCCTTATT
1 GCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCTACTCCCTATT
* * * *
160248 CCTTCAGAAAGCATAGGACTCGAACAATCTTCAACAAACATGTCC
66 CCTTCAG-GAGTATAGGACTCGAACAATCTTCAACAAACGTGTCT
* * * * * *
160293 GCTCCCGATTCATTCAGGGAGTATAAGACTCAAACAATCTTGAATAAACATGTCTACTCCCTATT
1 GCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCTACTCCCTATT
* * *
160358 CGTTCAGGGAGTATAAGACTCGAACAATCTTCAGCAAACGTGTCT
66 CCTTCA-GGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCT
* * * * * * *
160403 ACTCCTTATTCATTCAGGGAGTATAAAACTCGAACAATATTCAACAAACGTGTCCACTCCTTATT
1 GCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCTACTCCCTATT
* * * * *
160468 CCATCAGAGAGCATAGGACTTGAACATTCTTCAACAAACGTGTCC
66 CCTTCAG-GAGTATAGGACTCGAACAATCTTCAACAAACGTGTCT
* * * * * * ** *
160513 ACTCCCTATTCCTTCAGAGAGTATAGGAATCGAACAATCTTCAACAAACGTATATGTTCCCCATT
1 GCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCTACTCCCTATT
* * *
160578 CCTTCAAAGAGTATAGGACTCAAACAATCTTCAAAAAACGTGTCT
66 CCTTC-AGGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCT
* * * * * *
160623 GATCCCTATTCCTTCAGAGAGTATAGGACTCGAGA-AATCTTCAACAAATGTGTCTGCTCCATAT
1 GCTCCCTATTCCTTCAGGGAGTATAAGACTCGA-ACAATCTTCAACAAACGTGTCTACTCCCTAT
* *
160687 TCCTACAGAGAGTATATGACTCGA
65 TCCTTCAG-GAGTATAGGACTCGA
160711 TCTTCATAAA
Statistics
Matches: 438, Mismatches: 84, Indels: 12
0.82 0.16 0.02
Matches are distributed among these distances:
109 3 0.01
110 432 0.99
111 3 0.01
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (109 bp):
GCTCCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAACAAACGTGTCTACTCCCTATT
CCTTCAGGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCT
Found at i:160371 original size:165 final size:165
Alignment explanation
Indices: 160092--160710 Score: 679
Period size: 165 Copynumber: 3.8 Consensus size: 165
160082 CCCTTAAGGG
* * * ** *
160092 AGTATAAGACTCGAACAATCTTCAGCAAATGTGTATGCTCCCTATTCTTTCATG-GAGTATAAGA
1 AGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCTCCCTATTCATTCA-GAGAGTATAAGA
*
160156 CTCGAACAATCTTGAACAAACATGTCTGCTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAAT
65 CTCGAACAATCTTGAACAAACATGTCTACTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAAT
*
160221 CTTCAGCAAACGTGTCCACTCCTTATTCCTTCAGAA
130 CTTCAGCAAACGTGTCTACTCCTTATTCCTTCAGAA
* * * *
160257 AGCATAGGACTCGAACAATCTTCAACAAACATGTCCGCTCCCGATTCATTCAGGGAGTATAAGAC
1 AGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAAGAC
* *
160322 TCAAACAATCTTGAATAAACATGTCTACTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAATC
66 TCGAACAATCTTGAACAAACATGTCTACTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAATC
* **
160387 TTCAGCAAACGTGTCTACTCCTTATTCATTCAGGG
131 TTCAGCAAACGTGTCTACTCCTTATTCCTTCAGAA
** * * * * *
160422 AGTATAAAACTCGAACAATATTCAACAAACGTGTCCACTCCTTATTCCA-TCAGAGAGCATAGGA
1 AGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCTCCCTATT-CATTCAGAGAGTATAAGA
* * * * * * * * *
160486 CTTGAACATTCTTCAACAAACGTGTCCACTCCCTATTCCTTCAGAGAGTATAGGAATCGAACAAT
65 CTCGAACAATCTTGAACAAACATGTCTACTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAAT
* * * ** **
160551 CTTCAACAAACGTATATGTTCCCCATTCCTTCA-AA
130 CTTCAGCAAACGTGTCTACTCCTTATTCCTTCAGAA
* * * * * *
160586 GAGTATAGGACTCAAACAATCTTCAAAAAACGTGTCTGATCCCTATTCCTTCAGAGAGTATAGGA
1 -AGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAAGA
* ** * * * * * *
160651 CTCGAGA-AATCTTCAACAAATGTGTCTGCTCCATATTCCTACAGAGAGTATATGACTCGA
65 CTCGA-ACAATCTTGAACAAACATGTCTACTCCCTATTCGTTCAGGGAGTATAAGACTCGA
160711 TCTTCATAAA
Statistics
Matches: 381, Mismatches: 68, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
164 2 0.01
165 376 0.99
166 3 0.01
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (165 bp):
AGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCTCCCTATTCATTCAGAGAGTATAAGAC
TCGAACAATCTTGAACAAACATGTCTACTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAATC
TTCAGCAAACGTGTCTACTCCTTATTCCTTCAGAA
Found at i:160842 original size:37 final size:37
Alignment explanation
Indices: 160748--160844 Score: 126
Period size: 37 Copynumber: 2.6 Consensus size: 37
160738 CTCTTCCACA
*
160748 AAGGCTTATAGA-TGATTTGCTTCACTACTATTCTGTG
1 AAGGCTTA-AGATTGATTTGTTTCACTACTATTCTGTG
* * *
160785 AAGGCTTAAGATTGAATTGTTTCACTGCTCTT-TCGTG
1 AAGGCTTAAGATTGATTTGTTTCACTACTATTCT-GTG
160822 AAGGCTTAAGATTGATTTGTTTC
1 AAGGCTTAAGATTGATTTGTTTC
160845 GAAGGTCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
36 4 0.08
37 49 0.92
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (37 bp):
AAGGCTTAAGATTGATTTGTTTCACTACTATTCTGTG
Found at i:161955 original size:15 final size:15
Alignment explanation
Indices: 161937--162061 Score: 90
Period size: 15 Copynumber: 7.8 Consensus size: 15
161927 ATTTTTTCTC
*
161937 TTTTTTATTTTTCAT
1 TTTTTTCTTTTTCAT
161952 TTTTTAATCTCTTCTTCCAT
1 TTTTT--TCT-TT-TT-CAT
* *
161972 TTTTTATTTTTTTTAT
1 TTTTT-TCTTTTTCAT
*
161988 TTTTTCCCTTTTTTC-T
1 TTTTT-TC-TTTTTCAT
* *
162004 CTTTTTTCCTTTTCCT
1 -TTTTTTCTTTTTCAT
*
162020 TTTTTTCCTTTTCAT
1 TTTTTTCTTTTTCAT
*
162035 TTTTTTCATTTTCAT
1 TTTTTTCTTTTTCAT
162050 TTTTTTCTTTTT
1 TTTTTTCTTTTT
162062 TCTTCTTTTT
Statistics
Matches: 90, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
15 49 0.54
16 10 0.11
17 14 0.16
18 4 0.04
19 5 0.06
20 8 0.09
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTTTCTTTTTCAT
Found at i:161999 original size:18 final size:17
Alignment explanation
Indices: 161978--162087 Score: 81
Period size: 18 Copynumber: 6.8 Consensus size: 17
161968 CCATTTTTTA
*
161978 TTTTTTTTATTTTTTCCC
1 TTTTTTCTATTTTTT-CC
*
161996 TTTTTTCTCTTTTTTCC
1 TTTTTTCTATTTTTTCC
*
162013 -TTTTCCT-TTTTTTCC
1 TTTTTTCTATTTTTTCC
*
162028 --TTTTC-ATTTTTTTC
1 TTTTTTCTATTTTTTCC
* *
162042 -ATTTTC-ATTTTTTTC
1 TTTTTTCTATTTTTTCC
* *
162057 TTTTTTCTTCTTTTTTCA
1 TTTTTTC-TATTTTTTCC
162075 TTTTTTCTATTTT
1 TTTTTTCTATTTT
162088 CTTTCACTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
14 11 0.14
15 22 0.29
16 11 0.14
17 7 0.09
18 26 0.34
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTCTATTTTTTCC
Found at i:162092 original size:19 final size:18
Alignment explanation
Indices: 161971--162106 Score: 82
Period size: 15 Copynumber: 8.2 Consensus size: 18
161961 TCTTCTTCCA
*
161971 TTTTTT-ATTTTTTTTAT
1 TTTTTTCATTTTTTCTAT
* * *
161988 TTTTTCCCTTTTTTCT-C
1 TTTTTTCATTTTTTCTAT
* *
162005 TTTTTTC--CTTTTC-CT
1 TTTTTTCATTTTTTCTAT
*
162020 TTTTTTC--CTTTTC-AT
1 TTTTTTCATTTTTTCTAT
162035 TTTTTTCA--TTTTC-AT
1 TTTTTTCATTTTTTCTAT
162050 TTTTTTC-TTTTTTCT-T
1 TTTTTTCATTTTTTCTAT
162066 CTTTTTTCATTTTTTCTAT
1 -TTTTTTCATTTTTTCTAT
* *
162085 TTTCTTTCACTTTTTCTCT
1 TTT-TTTCATTTTTTCTAT
162104 TTT
1 TTT
162107 CTCATTCAAG
Statistics
Matches: 99, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
15 40 0.40
16 6 0.06
17 18 0.18
18 18 0.18
19 17 0.17
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTTCATTTTTTCTAT
Found at i:162106 original size:26 final size:26
Alignment explanation
Indices: 162027--162108 Score: 75
Period size: 25 Copynumber: 3.3 Consensus size: 26
162017 CCTTTTTTTC
162027 CTTTTC-ATTTT-TTTCA-TTTTCATT
1 CTTTTCTATTTTCTTTCATTTTTCA-T
* * *
162051 TTTTTCTTTTTTC-TTCTTTTTTCAT
1 CTTTTCTATTTTCTTTCATTTTTCAT
*
162076 TTTTTCTATTTTCTTTCACTTTTTC-T
1 CTTTTCTATTTTCTTTCA-TTTTTCAT
162102 CTTTTCT
1 CTTTTCT
162109 CATTCAAGCA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
24 5 0.11
25 20 0.43
26 16 0.34
27 6 0.13
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.74
Consensus pattern (26 bp):
CTTTTCTATTTTCTTTCATTTTTCAT
Found at i:162114 original size:21 final size:19
Alignment explanation
Indices: 162028--162108 Score: 63
Period size: 19 Copynumber: 4.7 Consensus size: 19
162018 CTTTTTTTCC
162028 TTTTC-ATTTT-TTTCA--
1 TTTTCTATTTTCTTTCACT
*
162043 TTTTC-ATTTT-TTTC-TT
1 TTTTCTATTTTCTTTCACT
*
162059 TTTTCT-TCTTT-TTTCATT
1 TTTTCTAT-TTTCTTTCACT
162077 TTTTCTATTTTCTTTCACT
1 TTTTCTATTTTCTTTCACT
*
162096 TTTTCTCTTTTCT
1 TTTTCTATTTTCT
162109 CATTCAAGCA
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
15 14 0.25
16 6 0.11
17 7 0.12
18 11 0.19
19 19 0.33
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTCTATTTTCTTTCACT
Found at i:165601 original size:2 final size:2
Alignment explanation
Indices: 165594--165633 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
165584 AAAAGAGAAG
165594 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
165634 GGGATGACCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:167802 original size:798 final size:798
Alignment explanation
Indices: 166096--168490 Score: 4339
Period size: 797 Copynumber: 3.0 Consensus size: 798
166086 GGATCTCATC
* * * * *
166096 TAAGGTCTTCACTAGCCAATATGCCATTTCTCATTTCCTGACCCCTTTTAATTCCCCTCAGCTTT
1 TAAGGTCTTCACTAGCCAATAAGTCATTTCTCATTTCCTGGCCCCTATTAATTCCCCTCAGGTTT
* * * *
166161 TCCCTCAAAGTTGGTTGATACCCCAAACCAAAACGATCTCTTTTATTAATAT-GACAGATTGGAT
66 TCCCTCAAAGTTGGCTGATACCCCAAACCAAAATGATCTTTTTTATTAACATGGA-AGATTGGAT
* * *
166225 TCACCGGTCTTTGCAATCGACTTCCTAACCCTTTCCCAACTTTTGCTCCTCTTCCAAGGGTCAGC
130 TCACTGGTCCTTGCAACCGACTTCCTAACCCTTTCCCAACTTTTGCTCCTCTTCCAAGGGTCAGC
* * * *
166290 TTGAGTCCCATTTTGGTACAGTTTGATAATCTAGGCTTTGGTATCTTCCTGCCTTCAGCTACAAA
195 TTGAGTCCCATTTTGGTACAGTTTTATAATATAGGCTTTGGTATCTTCATGCCTTCAGCTATAAA
166355 CGTGGCATTGACAAACTCTAACGATCTGAAAGAACATCCAAC-GACTTGCTCATCCACTTAAATA
260 CGTGGCATTGACAAACTCTAACGATCTGAAAGAACATCCAACAG-CTTGCTCATCCACTTAAATA
* *
166419 TACAGAGCAGTAGTAGAAATAGAAGCAATAATATCCTATTCAGTGTGAATACATACCAACCTTCC
324 TACAGAGCAATAGTAGAAATAGAAGCAATAATATCCTCTTCAGTGTGAATACATACCAACCTTCC
* * * *
166484 ATCAATTACAAATTTTAATCTCTGGCGTAATGTTGATGGAACTATACCGGCCTGATGAATCCAAG
389 ATCAATTACAAATTTTAATCTCTGGTGCAATGTTGATGGAACTGTACCGGCCCGATGAATCCAAG
166549 GCCTTCCCAACAAGCAATTGTATGTAGGCATAACGTCCATCACGAGAAATTCCACTTCATAAGTT
454 GCCTTCCCAACAAGCAATTGTATGTAGGCATAACGTCCATCACGAGAAATT-CACTTCATAAGTT
*
166614 GCTAGACCAATGGTTAGAGGAACATCAATCTTGCCTAACATTTCTTTTTTAGTCCCATCAAAAGC
518 GCTAGACCAATGGTTAGAGGAACATCAATCTTGCCTAACACTTCTTTTTTAGTCCCATCAAAAGC
166679 TCGAACCACACTCTCATAGCTTCTCATAAGTGAACTATCTAATGACAACTTGTTCAGAGTCACCA
583 TCGAACCACACTCTCATAGCTTCTCATAAGTGAACTATCTAATGACAACTTGTTCAGAGTCACCA
* *
166744 CGTGTATCACATTCAAAGCCGAACCATTATTAACCAATACTCTGGACAACACATGCCCTTTGCAC
648 CGGGTATCACATTCAAAGCCGAACCATTATTAACCAATACTCTGGACAGCACATGCCCTTTGCAC
166809 TTAACTGTGATATGCAAAGCCTTATGACTACCAATCATCCCAGTAGGGATTTCATCCTCAGAAAA
713 TTAACTGTGATATGCAAAGCCTTATGACTACCAATCATCCCAGTAGGGATTTCATCCTCAGAAAA
166874 ATATAGAAAATTATCAGCTTG
778 ATATAGAAAATTATCAGCTTG
166895 TAAGGTCTTCACTAGCCAATAAGTCATTTCTCATTTCCTGGCCCCTATTAATTCCCCTCAGGTTT
1 TAAGGTCTTCACTAGCCAATAAGTCATTTCTCATTTCCTGGCCCCTATTAATTCCCCTCAGGTTT
166960 TCCCTCAAAGTTGGCTGATACCCCAAACCAAAATGATC-TTTTTATTAACATGGAAGATTGGATT
66 TCCCTCAAAGTTGGCTGATACCCCAAACCAAAATGATCTTTTTTATTAACATGGAAGATTGGATT
*
167024 CACTGGTCCTTGCAACCGACTTCCTAACCCTTTCCCAACTTTTGCTCCTCTTCCAAGGGTTAGCT
131 CACTGGTCCTTGCAACCGACTTCCTAACCCTTTCCCAACTTTTGCTCCTCTTCCAAGGGTCAGCT
167089 TGAGTCCCATTTTGGTACAGTTTTATAATATAGGCTTTGGTATCTTCATGCCTTCAGCTATAAAC
196 TGAGTCCCATTTTGGTACAGTTTTATAATATAGGCTTTGGTATCTTCATGCCTTCAGCTATAAAC
167154 GTGGCATTGACAAACTCTAACGATCTGAAAGAACATCCAACAGCTTGCTCATCCACTTAAATATA
261 GTGGCATTGACAAACTCTAACGATCTGAAAGAACATCCAACAGCTTGCTCATCCACTTAAATATA
** *
167219 TGGAGCAATAGTAGAAATAGAAGCAATAATATCCCCTTCAGTGTGAATACATACCAACCTTCCAT
326 CAGAGCAATAGTAGAAATAGAAGCAATAATATCCTCTTCAGTGTGAATACATACCAACCTTCCAT
*
167284 CAATTACAAATTTTAATCTCTGGTGCAATGTTGATGGAACTGTACCAGCCCGATGAATCCAAGGC
391 CAATTACAAATTTTAATCTCTGGTGCAATGTTGATGGAACTGTACCGGCCCGATGAATCCAAGGC
167349 CTTCCCAACAAGCAATTGTATGTAGGCATAACGTCCATCACGAGAAATTCACTTCATAAGTTGCT
456 CTTCCCAACAAGCAATTGTATGTAGGCATAACGTCCATCACGAGAAATTCACTTCATAAGTTGCT
*
167414 AGACCAATGGTTAGAGGAACATCAATCTTGCCTAACACTTCTTTTTTAGTTCCATCAAAAGCTCG
521 AGACCAATGGTTAGAGGAACATCAATCTTGCCTAACACTTCTTTTTTAGTCCCATCAAAAGCTCG
167479 AACCACACTCTCATAGCTTCTCATAAGTGAACTATCTAATGACAACTTGTTCAGAGTCACCACGG
586 AACCACACTCTCATAGCTTCTCATAAGTGAACTATCTAATGACAACTTGTTCAGAGTCACCACGG
* *
167544 GTATCACATTCAAAGTCGAACCATTATTAACCAATACTCTGGACAGCACATGCCCTTTGCACCTA
651 GTATCACATTCAAAGCCGAACCATTATTAACCAATACTCTGGACAGCACATGCCCTTTGCACTTA
167609 ACTGTGATATGCAAAGCCTTATGACTACCAATCATCCCAGTAGGGATTTCATCCTCAGAAAAATA
716 ACTGTGATATGCAAAGCCTTATGACTACCAATCATCCCAGTAGGGATTTCATCCTCAGAAAAATA
*
167674 TAGAAAATTATCAACTTG
781 TAGAAAATTATCAGCTTG
167692 TAAGGTCTTCACTAGCCAATAAGTCATTTCTCATTTCCTGGCCCCTATTAATTCCCCTCAGGTTT
1 TAAGGTCTTCACTAGCCAATAAGTCATTTCTCATTTCCTGGCCCCTATTAATTCCCCTCAGGTTT
167757 TCCCTCAAAGTTGGCTGATACCCCAAACCAAAATGATCTTTTTTATTAACATGGAAGATTGGATT
66 TCCCTCAAAGTTGGCTGATACCCCAAACCAAAATGATCTTTTTTATTAACATGGAAGATTGGATT
*
167822 CACTGGTCCTTACAACCGACTTCCTAACCCTTTCCCAACTTTTGCTCCTCTTCCAAGGGTCAGCT
131 CACTGGTCCTTGCAACCGACTTCCTAACCCTTTCCCAACTTTTGCTCCTCTTCCAAGGGTCAGCT
* *
167887 TGAGTCTCATTTTGGTACAGTTTTATAATATAGGCTTTGGTATCTTCATGCCTTCAGCTATAAAT
196 TGAGTCCCATTTTGGTACAGTTTTATAATATAGGCTTTGGTATCTTCATGCCTTCAGCTATAAAC
167952 GTGGCATTGACAAACTCTAACGATCTGAAA-AACATCCAACAGCTTGCTCATCCACTTAAATATA
261 GTGGCATTGACAAACTCTAACGATCTGAAAGAACATCCAACAGCTTGCTCATCCACTTAAATATA
*
168016 CAGAGAAATAGTAGAAATAGAAGCAATAATATCCTCTTCAGTGTGAATACATACCAACCTTCCAT
326 CAGAGCAATAGTAGAAATAGAAGCAATAATATCCTCTTCAGTGTGAATACATACCAACCTTCCAT
*
168081 CAATTACAAATTTTAATCTCTGGTGCAATGTTGATGGAACTGTACCGGACCGATGAATCCAAGGC
391 CAATTACAAATTTTAATCTCTGGTGCAATGTTGATGGAACTGTACCGGCCCGATGAATCCAAGGC
168146 CTTCCCAACAAGCAATTGTATGTAGGCATAACGTCCATCACGAGAAATTCACTTCATAAGTTGCT
456 CTTCCCAACAAGCAATTGTATGTAGGCATAACGTCCATCACGAGAAATTCACTTCATAAGTTGCT
168211 AGACCAATGGTTAGAGGAACATCAATCTTGCCTAACACTTCTTTTTTAGTCCCATCAAAAGCTCG
521 AGACCAATGGTTAGAGGAACATCAATCTTGCCTAACACTTCTTTTTTAGTCCCATCAAAAGCTCG
* *
168276 AACCACACTCTGATAGCTTCTCATAAGTGAACTATCTAATGACAGCTTGTTCAGAGTCACCACGG
586 AACCACACTCTCATAGCTTCTCATAAGTGAACTATCTAATGACAACTTGTTCAGAGTCACCACGG
*
168341 GTATCACATTCAAAGCCGAACCATTATTAACCAATACTCTGGACAGCACATGGCCTTTGCACTTA
651 GTATCACATTCAAAGCCGAACCATTATTAACCAATACTCTGGACAGCACATGCCCTTTGCACTTA
*
168406 ACTATGATATGCAAAGCCTTATGACTACCAATCATCCCAGTAGGGATTTCATCCTCAGAAAAATA
716 ACTGTGATATGCAAAGCCTTATGACTACCAATCATCCCAGTAGGGATTTCATCCTCAGAAAAATA
*
168471 TAAAAAATTATCAGCTTG
781 TAGAAAATTATCAGCTTG
168489 TA
1 TA
168491 TATTGGCAAC
Statistics
Matches: 1540, Mismatches: 53, Indels: 8
0.96 0.03 0.00
Matches are distributed among these distances:
797 884 0.57
798 557 0.36
799 99 0.06
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (798 bp):
TAAGGTCTTCACTAGCCAATAAGTCATTTCTCATTTCCTGGCCCCTATTAATTCCCCTCAGGTTT
TCCCTCAAAGTTGGCTGATACCCCAAACCAAAATGATCTTTTTTATTAACATGGAAGATTGGATT
CACTGGTCCTTGCAACCGACTTCCTAACCCTTTCCCAACTTTTGCTCCTCTTCCAAGGGTCAGCT
TGAGTCCCATTTTGGTACAGTTTTATAATATAGGCTTTGGTATCTTCATGCCTTCAGCTATAAAC
GTGGCATTGACAAACTCTAACGATCTGAAAGAACATCCAACAGCTTGCTCATCCACTTAAATATA
CAGAGCAATAGTAGAAATAGAAGCAATAATATCCTCTTCAGTGTGAATACATACCAACCTTCCAT
CAATTACAAATTTTAATCTCTGGTGCAATGTTGATGGAACTGTACCGGCCCGATGAATCCAAGGC
CTTCCCAACAAGCAATTGTATGTAGGCATAACGTCCATCACGAGAAATTCACTTCATAAGTTGCT
AGACCAATGGTTAGAGGAACATCAATCTTGCCTAACACTTCTTTTTTAGTCCCATCAAAAGCTCG
AACCACACTCTCATAGCTTCTCATAAGTGAACTATCTAATGACAACTTGTTCAGAGTCACCACGG
GTATCACATTCAAAGCCGAACCATTATTAACCAATACTCTGGACAGCACATGCCCTTTGCACTTA
ACTGTGATATGCAAAGCCTTATGACTACCAATCATCCCAGTAGGGATTTCATCCTCAGAAAAATA
TAGAAAATTATCAGCTTG
Found at i:178850 original size:20 final size:19
Alignment explanation
Indices: 178821--178880 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 19
178811 ATGCACATGC
178821 AATTTCGAAACTTTGAAGAA
1 AATTTCGAAACTTTG-AGAA
*
178841 AATTTTGAAACTTTTGAGAA
1 AATTTCGAAAC-TTTGAGAA
* *
178861 AGTTTCGAAACTTTGTGAA
1 AATTTCGAAACTTTGAGAA
178880 A
1 A
178881 GTATCAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.23
20 23 0.66
21 4 0.11
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (19 bp):
AATTTCGAAACTTTGAGAA
Found at i:179032 original size:21 final size:21
Alignment explanation
Indices: 179008--179055 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
178998 GTTGCAAAGT
179008 CTCTTAATAAAAGTTTCAAAA
1 CTCTTAATAAAAGTTTCAAAA
179029 CTCTTAATAAAAGTTTCAAAA
1 CTCTTAATAAAAGTTTCAAAA
179050 CTCTTA
1 CTCTTA
179056 CAAATGTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.35
Consensus pattern (21 bp):
CTCTTAATAAAAGTTTCAAAA
Found at i:179126 original size:106 final size:105
Alignment explanation
Indices: 179016--179225 Score: 305
Period size: 106 Copynumber: 2.0 Consensus size: 105
179006 GTCTCTTAAT
**
179016 AAAAGTTTCAAAACTCTTAATAAAAGTTTCAAAACTCTTACAAA-TGTTCCAATCTATGAACAGT
1 AAAAGTTTCAAAACTCTTAATAAAAGTTTCAAAACTCTTACAAAGT-TTCCAAAATATGAACA-T
* * *
179080 ACCCGTGTATGAACAGTATCCTGAACAGTGCCAACTAGTGAC
64 ACCCATGTATGAACAGTATCATGAACAGTGCCAAATAGTGAC
*
179122 AAAAGTTTCGAAACTCTTAATAAAAGTTTCAAAACTCTTACAAAGTTTCCAAAATATGAACATAC
1 AAAAGTTTCAAAACTCTTAATAAAAGTTTCAAAACTCTTACAAAGTTTCCAAAATATGAACATAC
* * * *
179187 TCATGTATGAACATTATTATGGACAGTGCCAAATAGTGA
66 CCATGTATGAACAGTATCATGAACAGTGCCAAATAGTGA
179226 TTGAATAGTG
Statistics
Matches: 93, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
105 35 0.38
106 57 0.61
107 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (105 bp):
AAAAGTTTCAAAACTCTTAATAAAAGTTTCAAAACTCTTACAAAGTTTCCAAAATATGAACATAC
CCATGTATGAACAGTATCATGAACAGTGCCAAATAGTGAC
Found at i:179170 original size:19 final size:21
Alignment explanation
Indices: 179122--179161 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
179112 AACTAGTGAC
*
179122 AAAAGTTTCGAAACTCTTAAT
1 AAAAGTTTCAAAACTCTTAAT
179143 AAAAGTTTCAAAACTCTTA
1 AAAAGTTTCAAAACTCTTA
179162 CAAAGTTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (21 bp):
AAAAGTTTCAAAACTCTTAAT
Found at i:181830 original size:20 final size:19
Alignment explanation
Indices: 181805--181877 Score: 58
Period size: 20 Copynumber: 3.7 Consensus size: 19
181795 ATGAACATGC
181805 AGTTTCGAAACTTTGAAAAA
1 AGTTTCGAAACTTTG-AAAA
** *
181825 AGTTTCCTAACTTTTGAGAA
1 AGTTTCGAAAC-TTTGAAAA
* **
181845 AGTTTTGAAACTTTGTGAA
1 AGTTTCGAAACTTTGAAAA
181864 AGTATT-GAAACTTT
1 AGT-TTCGAAACTTT
181878 TAAACACACT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 18 0.41
20 22 0.50
21 4 0.09
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (19 bp):
AGTTTCGAAACTTTGAAAA
Done.