Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 110 of 199
Found at i:31203681 original size:24 final size:24
Alignment explanation
Indices: 31203649--31203694 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
31203639 GGATGAGATA
*
31203649 TCGACCTTTGCATTGCTATCCTTT
1 TCGACCTTTGCATTGATATCCTTT
*
31203673 TCGACCTTTTCATTGATATCCT
1 TCGACCTTTGCATTGATATCCT
31203695 ATTTGGATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.28, G:0.11, T:0.46
Consensus pattern (24 bp):
TCGACCTTTGCATTGATATCCTTT
Found at i:31203711 original size:40 final size:40
Alignment explanation
Indices: 31203666--31203770 Score: 149
Period size: 41 Copynumber: 2.6 Consensus size: 40
31203656 TTGCATTGCT
* ** *
31203666 ATCCTTTTCGACCTTTTCATTGATATCCTATTTGGA-TAGC
1 ATCCTTTTCAACCTTTTCATTGATATCCT-TTTCAAGTAAC
31203706 ATCCTTTTCAACCTTTTCATTTGATATCCTTTTCAAGTAAC
1 ATCCTTTTCAACCTTTTCA-TTGATATCCTTTTCAAGTAAC
31203747 ATCCTTTTCAACCTTTTCATTGAT
1 ATCCTTTTCAACCTTTTCATTGAT
31203771 TTGGAAATAC
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
40 27 0.46
41 32 0.54
ACGTcount: A:0.22, C:0.24, G:0.08, T:0.47
Consensus pattern (40 bp):
ATCCTTTTCAACCTTTTCATTGATATCCTTTTCAAGTAAC
Found at i:31212541 original size:13 final size:13
Alignment explanation
Indices: 31212523--31212548 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31212513 CTAGTTTACG
31212523 AACTATTTTGATT
1 AACTATTTTGATT
31212536 AACTATTTTGATT
1 AACTATTTTGATT
31212549 TAAAATCTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
AACTATTTTGATT
Found at i:31221520 original size:2 final size:2
Alignment explanation
Indices: 31221513--31221559 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
31221503 ACTTTGATTT
31221513 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
31221555 TG TG T
1 TG TG T
31221560 TCTTATGCTT
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:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:31227003 original size:21 final size:21
Alignment explanation
Indices: 31226978--31227029 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
31226968 AAATGGCAGC
* *
31226978 GAAACAACATCAAAATAGTAG
1 GAAACAACAGCAAAATAGTAA
*
31226999 GAAACAATAGCAAAATAGTAA
1 GAAACAACAGCAAAATAGTAA
*
31227020 TAAACAACAG
1 GAAACAACAG
31227030 TGAAAATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (21 bp):
GAAACAACAGCAAAATAGTAA
Found at i:31239477 original size:12 final size:11
Alignment explanation
Indices: 31239460--31239525 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 11
31239450 GAATTTTGAA
31239460 TTTTAAATACTT
1 TTTTAAATA-TT
31239472 TTTTAAAATAATT
1 TTTT-AAAT-ATT
31239485 TTTTAAATA-T
1 TTTTAAATATT
*
31239495 TTTTATAATAAT
1 TTTTA-AATATT
**
31239507 TTTTATGTA-T
1 TTTTAAATATT
31239517 TTTTAAATA
1 TTTTAAATA
31239526 GTAAGGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
10 14 0.30
11 7 0.15
12 14 0.30
13 10 0.22
14 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (11 bp):
TTTTAAATATT
Found at i:31239484 original size:23 final size:21
Alignment explanation
Indices: 31239458--31239523 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 21
31239448 TTGAATTTTG
31239458 AATTTTAAATACTTTTTTAAAAT
1 AATTTTAAATA--TTTTTAAAAT
*
31239481 AATTTTTTAAATATTTTTATAAT
1 AA--TTTTAAATATTTTTAAAAT
**
31239504 AATTTTTATGTATTTTTAAA
1 AA-TTTTAAATATTTTTAAA
31239524 TAGTAAGGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 15 0.41
23 13 0.35
25 9 0.24
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
AATTTTAAATATTTTTAAAAT
Found at i:31239486 original size:13 final size:12
Alignment explanation
Indices: 31239460--31239510 Score: 61
Period size: 13 Copynumber: 4.2 Consensus size: 12
31239450 GAATTTTGAA
*
31239460 TTTTAAATACTT
1 TTTTAAATAATT
31239472 TTTTAAAATAATT
1 TTTT-AAATAATT
31239485 TTTTAAAT-A-T
1 TTTTAAATAATT
31239495 TTTTATAATAATT
1 TTTTA-AATAATT
31239508 TTT
1 TTT
31239511 ATGTATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
10 6 0.18
11 4 0.12
12 9 0.26
13 15 0.44
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTTAAATAATT
Found at i:31247195 original size:61 final size:58
Alignment explanation
Indices: 31247110--31247246 Score: 195
Period size: 61 Copynumber: 2.3 Consensus size: 58
31247100 TTGTTATTTA
* *
31247110 ATTTTAATA-AGATTATTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAATCAT
1 ATTTTAATATA-ATTATTATTAAATATAATTTAATAAAAAT---AATAAATAATTTAATAAC
*
31247171 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAAC
31247229 ATTCTTAATATAATTATT
1 ATT-TTAATATAATTATT
31247247 TTTATATTAA
Statistics
Matches: 71, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
58 18 0.25
59 14 0.20
61 38 0.54
62 1 0.01
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.45
Consensus pattern (58 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAAC
Found at i:31253464 original size:16 final size:17
Alignment explanation
Indices: 31253433--31253465 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31253423 AAAAGTACTC
*
31253433 AAAGAAAAGTGAAAGAA
1 AAAGAAAAGAGAAAGAA
31253450 AAAGAAAA-AGAAAGAA
1 AAAGAAAAGAGAAAGAA
31253466 CAAAAGGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (17 bp):
AAAGAAAAGAGAAAGAA
Found at i:31259198 original size:22 final size:21
Alignment explanation
Indices: 31259173--31259244 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 21
31259163 TAACAGAATG
31259173 TATCATAGCATATCAGATTTCA
1 TATCATAGCATATCA-ATTTCA
* *
31259195 TATCGA-AGCTTATCATATATCA
1 TATC-ATAGCATATCA-ATTTCA
* *
31259217 TATCATATCATATCTATTTTCA
1 TATCATAGCATATC-AATTTCA
31259239 TATCAT
1 TATCAT
31259245 GCTGTAGCAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
21 1 0.03
22 37 0.93
23 2 0.05
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.42
Consensus pattern (21 bp):
TATCATAGCATATCAATTTCA
Found at i:31259262 original size:44 final size:44
Alignment explanation
Indices: 31259173--31259318 Score: 107
Period size: 44 Copynumber: 3.3 Consensus size: 44
31259163 TAACAGAATG
* * ** * * *
31259173 TATCATAGCATATCAGATTTCATATCGAAGCT-TATCATATATCA
1 TATCATATCATATCATAACTCATATC-ATGCTATAGCATATCTCA
** * * *
31259217 TATCATATCATATC-TATTTTCATATCATGCTGTAGCATGTTTCA
1 TATCATATCATATCATA-ACTCATATCATGCTATAGCATATCTCA
* * * * *
31259261 TATCTTGTCATATCATAACTCATGTCATGTTATATCATATCTCA
1 TATCATATCATATCATAACTCATATCATGCTATAGCATATCTCA
31259305 TATCATATCATATC
1 TATCATATCATATC
31259319 CTACCCCAAC
Statistics
Matches: 81, Mismatches: 18, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
43 5 0.06
44 74 0.91
45 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.42
Consensus pattern (44 bp):
TATCATATCATATCATAACTCATATCATGCTATAGCATATCTCA
Found at i:31259283 original size:22 final size:22
Alignment explanation
Indices: 31259258--31259318 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
31259248 GTAGCATGTT
*
31259258 TCATATCTTGTCATATCATAAC
1 TCATATCATGTCATATCATAAC
* * *
31259280 TCATGTCATGTTATATCATATC
1 TCATATCATGTCATATCATAAC
*
31259302 TCATATCATATCATATC
1 TCATATCATGTCATATC
31259319 CTACCCCAAC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.43
Consensus pattern (22 bp):
TCATATCATGTCATATCATAAC
Found at i:31259307 original size:12 final size:12
Alignment explanation
Indices: 31259268--31259313 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
31259258 TCATATCTTG
*
31259268 TCATATCATAAC
1 TCATATCATATC
* *
31259280 TCATGTCATGT-
1 TCATATCATATC
31259291 T-ATATCATATC
1 TCATATCATATC
31259302 TCATATCATATC
1 TCATATCATATC
31259314 ATATCCTACC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
10 7 0.26
11 2 0.07
12 18 0.67
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (12 bp):
TCATATCATATC
Found at i:31262296 original size:19 final size:20
Alignment explanation
Indices: 31262272--31262316 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
31262262 TTGAGATGGA
31262272 ATGATATTCAACTTTGTGG-
1 ATGATATTCAACTTTGTGGT
* *
31262291 ATGATATTTAACTTTTTGGT
1 ATGATATTCAACTTTGTGGT
31262311 ATGATA
1 ATGATA
31262317 GGGACATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.47
Consensus pattern (20 bp):
ATGATATTCAACTTTGTGGT
Found at i:31270456 original size:179 final size:179
Alignment explanation
Indices: 31270185--31270840 Score: 990
Period size: 179 Copynumber: 3.7 Consensus size: 179
31270175 TTCGATTCGT
* * * * * * *
31270185 TCCAATATAATTTCAGAGAGAAGAGACTTGTAGCTTTGATCTACTCCGCTGCAACATCAAGGAGA
1 TCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGGAACTTCAAGGAGA
* * * *
31270250 TAAGAATTGGTAATTTCAACCTGCTCCATTGCAACTTCAAGGAGATAAGGTTTGTACATTTTTAT
66 TAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTATATTTTTAT
* * *
31270315 CCTGCTCCACTGCAACTTTAGGGAGATAATGATTGTAGCTTCGATCTGC
131 CCTGCTCCACTGCAACTTTAGGGAGATAAGGATTATGGCTTCGATCTGC
* * *
31270364 TCTAATGTAATTTCAGGGAAAAGAGATTTGTAGCTTCGATCTAGTCTGCTGGAACTTCAAGGAGA
1 TCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGGAACTTCAAGGAGA
* * *
31270429 TAAGAATTGGTAACTTCAACTTGCTCCACTGCAACTTTAGGGAGAGAAGGTTTGTATATTTTTAT
66 TAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTATATTTTTAT
* *
31270494 CCTGCTCCACTACAACTTTAGGGAGATAAGGATTATGGCTTCAATCTGC
131 CCTGCTCCACTGCAACTTTAGGGAGATAAGGATTATGGCTTCGATCTGC
** *
31270543 TCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTTAATCTACT-TCGCTGGAACTTTAAGGAG
1 TCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCT-GCTGGAACTTCAAGGAG
* * *
31270607 ATAGGAATTGGTAACTTCAACCTGCTCCACTGTAACTTCAGGGGGATAAGGTTTGTATATTTTTA
65 ATAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTATATTTTTA
* *
31270672 TCCTGCTCCACTGCAACTTCAGGGAGATAAGGATTTTGGCTTCGATCTGC
130 TCCTGCTCCACTGCAACTTTAGGGAGATAAGGATTATGGCTTCGATCTGC
* *
31270722 TCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATTTACTCTGCTGAAACTTCAAGGAGA
1 TCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGGAACTTCAAGGAGA
* *
31270787 TAAGAATTGGTAACTTCAACCTGCTCCATTGTAACTTCAGGGAGATAAGGTTTG
66 TAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG
31270841 CAACTTGTAG
Statistics
Matches: 429, Mismatches: 46, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
178 1 0.00
179 427 1.00
180 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.32
Consensus pattern (179 bp):
TCCAATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCTGCTGGAACTTCAAGGAGA
TAAGAATTGGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTATATTTTTAT
CCTGCTCCACTGCAACTTTAGGGAGATAAGGATTATGGCTTCGATCTGC
Found at i:31270561 original size:44 final size:43
Alignment explanation
Indices: 31270495--31270840 Score: 145
Period size: 44 Copynumber: 7.8 Consensus size: 43
31270485 TATTTTTATC
**
31270495 CTGCTCCACTACAACTTT-AGGGAGATAAGGATTATGGCTTCAAT
1 CTGCTCCACTGTAA-TTTCAGGGAGATAAGGATT-TGGCTTCAAT
* *
31270539 CTGCTCCAATGTAATTTCAGGGAG--AAGAGATTTGTAGCTTTAAT
1 CTGCTCCACTGTAATTTCAGGGAGATAAG-GATTTG--GCTTCAAT
* * * * * * *
31270583 CTACTTCGCTGGAACTTT-AAGGAGAT-AGGAATTGGTAACTTCAAC
1 CTGCTCCACTGTAA-TTTCAGGGAGATAAGGATTTGG---CTTCAAT
* * ** **
31270628 CTGCTCCACTGTAACTTCAGGGGGATAAGG-TTTGTATATTTTTAT
1 CTGCTCCACTGTAATTTCAGGGAGATAAGGATTTG---GCTTCAAT
* * *
31270673 CCTGCTCCACTGCAACTTCAGGGAGATAAGGATTTTGGCTTCGAT
1 -CTGCTCCACTGTAATTTCAGGGAGATAAGGA-TTTGGCTTCAAT
* *
31270718 CTGCTCCAATGTAATTTCAGGGAG--AAGAGATTTGTAGCTTCGAT
1 CTGCTCCACTGTAATTTCAGGGAGATAAG-GATTTG--GCTTCAAT
* * ** * * * * *
31270762 TTACTCTGCTGAAACTTCAAGGAGATAA-GAATTGGTAACTTCAAC
1 CTGCTCCACTGTAATTTCAGGGAGATAAGGATTTGG---CTTCAAT
* *
31270807 CTGCTCCATTGTAACTTCAGGGAGATAAGG-TTTG
1 CTGCTCCACTGTAATTTCAGGGAGATAAGGATTTG
31270841 CAACTTGTAG
Statistics
Matches: 221, Mismatches: 54, Indels: 53
0.67 0.16 0.16
Matches are distributed among these distances:
42 14 0.06
43 9 0.04
44 95 0.43
45 65 0.29
46 34 0.15
48 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (43 bp):
CTGCTCCACTGTAATTTCAGGGAGATAAGGATTTGGCTTCAAT
Found at i:31271029 original size:143 final size:143
Alignment explanation
Indices: 31270879--31271318 Score: 682
Period size: 143 Copynumber: 3.1 Consensus size: 143
31270869 CAACTTCAGG
**
31270879 GAAATAAGATTCGTTGTCTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTC
1 GAAATAAGATTCACTGTCTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTC
* ** * *
31270944 AATCTACTCCACTGTAACTTCAGAAATACAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCA
66 AATCTGCTCCACTACAACTTCAGAAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCA
**
31271009 CTATAATGCCAGA
131 CTGCAATGCCAGA
* *
31271022 GAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTGTAACTTCAGGGAGATAAGGCTGGTGGCTTC
1 GAAATAAGATTCACTGTCTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTC
* *
31271087 AATCTGCTCCACTACAACTTCAGAAAGATAAGATCCGCCATAATTTGTAGCTTAAATCTGTTCCA
66 AATCTGCTCCACTACAACTTCAGAAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCA
* *
31271152 CTGCAACGCTAGA
131 CTGCAATGCCAGA
* * *
31271165 GAAATAACATTCACCGTCTTCAGTCTACTCCGTTGCAACTTCAGGGAGATAAGGCTGGTGGCTTC
1 GAAATAAGATTCACTGTCTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTC
* * *
31271230 AATCTGCTCTACTACAACTTCAGGAAGATAAGATTCGCTATAATTTGTAGCTTTAATCTGTTCCA
66 AATCTGCTCCACTACAACTTCAGAAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCA
*
31271295 CTGCAATGCCAGG
131 CTGCAATGCCAGA
31271308 GAAATAAGATT
1 GAAATAAGATT
31271319 TGCAGTTTCG
Statistics
Matches: 268, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
143 268 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (143 bp):
GAAATAAGATTCACTGTCTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTC
AATCTGCTCCACTACAACTTCAGAAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCA
CTGCAATGCCAGA
Found at i:31272659 original size:15 final size:16
Alignment explanation
Indices: 31272622--31272658 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
31272612 GAGGTTTTTA
31272622 TTTTTTTATTCTTTGG
1 TTTTTTTATTCTTTGG
*
31272638 TTTTTTTGTT-TTT-G
1 TTTTTTTATTCTTTGG
31272652 TTTTTTT
1 TTTTTTT
31272659 TTGCCTCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 8 0.40
15 3 0.15
16 9 0.45
ACGTcount: A:0.03, C:0.03, G:0.11, T:0.84
Consensus pattern (16 bp):
TTTTTTTATTCTTTGG
Found at i:31277408 original size:27 final size:27
Alignment explanation
Indices: 31277378--31277555 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
31277368 ATATTGAGCC
* * *
31277378 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
31277405 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
31277432 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
31277460 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
31277487 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
31277514 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
31277541 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31277556 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:31277471 original size:55 final size:55
Alignment explanation
Indices: 31277378--31277555 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
31277368 ATATTGAGCC
* * *
31277378 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
31277432 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
31277487 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
31277541 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31277556 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:31277517 original size:82 final size:81
Alignment explanation
Indices: 31277399--31277554 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
31277389 TGCTATACAA
* * *
31277399 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
31277464 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
31277481 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
31277545 CACTTAGTGC
65 CACTTAGTGC
31277555 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31280750 original size:22 final size:20
Alignment explanation
Indices: 31280723--31280764 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
31280713 CCGGCCTGAT
31280723 TTTTAATAAACACAAAAAAATA
1 TTTTAA-AAACA-AAAAAAATA
*
31280745 TTTTAAAAATAAAAAAAATA
1 TTTTAAAAACAAAAAAAATA
31280765 AAAAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 4 0.21
22 6 0.32
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
TTTTAAAAACAAAAAAAATA
Found at i:31283169 original size:109 final size:108
Alignment explanation
Indices: 31282899--31283220 Score: 468
Period size: 109 Copynumber: 3.0 Consensus size: 108
31282889 TGGATTAAAA
* * *
31282899 TTTAAGAGGATATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCACAT
1 TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* ** * * *
31282962 TTCCTCGAATTTTGAAACGTAAAATATTGTCTTATTTCGAAAT
66 TTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAT
* * * *
31283005 TTTAAAAGGATATTTGGCTATTTGATTGAATGACAAAAATCAAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
*
31283070 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAA-T
*
31283114 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
1 TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
* *
31283179 TTTCTCGAATTTCCAAATGCAAAATATTGCCTTACTTTGAAA
66 TTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAA
31283221 AATTTTCCTT
Statistics
Matches: 191, Mismatches: 22, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
106 29 0.15
108 62 0.32
109 100 0.52
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (108 bp):
TTTAAAAGGATATTTGGCTATTTGGTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGT
TTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAT
Found at i:31283299 original size:15 final size:15
Alignment explanation
Indices: 31283275--31283305 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31283265 AATGAATATG
*
31283275 ATAATGTGAACAAAA
1 ATAATATGAACAAAA
31283290 ATAATATGAACAAAA
1 ATAATATGAACAAAA
31283305 A
1 A
31283306 CGAATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (15 bp):
ATAATATGAACAAAA
Found at i:31283356 original size:4 final size:4
Alignment explanation
Indices: 31283347--31283382 Score: 63
Period size: 4 Copynumber: 8.8 Consensus size: 4
31283337 ATACCATGAC
31283347 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAACT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA-T AAA
31283383 ACATAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:31285604 original size:132 final size:130
Alignment explanation
Indices: 31285371--31286023 Score: 515
Period size: 132 Copynumber: 5.0 Consensus size: 130
31285361 TTTACTTCCT
* * * * * * *
31285371 TACTATCTGGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGTGATAC-AGA
1 TACTATCTTGGGAAGATAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAG-
* ** * * * ** * * * * *
31285435 ATCTACAATCTTTGACCTATTCCACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCTGTTT
65 ATCTGCAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAA--TGTTA
31285500 CTC
128 CTC
* * *
31285503 TACTATCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGGGAC-AGA
1 TACTATCTTGGGAAGATAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAG-
*
31285567 ATCTGCAATCTTCAATCTATTTCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATG-TACC
65 ATCTGCAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTTA-C
*
31285631 CC
129 TC
** * ** * ** *
31285633 ATTGTAACCACAGGG-AGGTAAAATCCGTCATCTTCGATCTGCT---C-ACTGCTTAGGGAGATA
1 -TACT-ATC-TTGGGAAGATAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACA
* * *
31285693 AGATCTGTAATCTTCAATCTATTTCACTGCTGCCCAGGGAAATAGAATTATTGGCTTCAATG-TA
63 AGATCTGCAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTTA
31285757 CTC
128 CTC
* * * * * * * *
31285760 CACTGTAACTATGGGGAGGTAAAATCCGCCATCTTCGTTCTGTTCCACTACTGCTTAGGGAGATA
1 TAC--TATCT-TGGGAAGATAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACA
* *
31285825 AGATATGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATG-TA
63 AGATCTGCAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTTA
31285889 CTC
128 CTC
* ** * * * * *
31285892 CACTATAACCACAGGG-AGGTAAAATCCGCCATATTCCATCTGCTCCACTACTGCTTAGGGAGAT
1 TACTAT---C-TTGGGAAGATAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGAC
* * * * *
31285956 AAGATCTGAAATCTTCAATCTATTCTATTG--GCAATCAGGGAGATAGAATTACTGGCTTCAATG
62 AAGATCTGCAATCTTCAATCTATTCCACTGCTGC--CCAGGGAGATAGAATTATTGGCTTCAATG
31286019 -TACTC
125 TTACTC
31286024 CACTGTAATC
Statistics
Matches: 441, Mismatches: 61, Indels: 38
0.82 0.11 0.07
Matches are distributed among these distances:
127 7 0.02
128 99 0.22
129 4 0.01
130 8 0.02
131 3 0.01
132 313 0.71
133 7 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (130 bp):
TACTATCTTGGGAAGATAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGA
TCTGCAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTTACTC
Found at i:31285878 original size:260 final size:261
Alignment explanation
Indices: 31285528--31286069 Score: 772
Period size: 260 Copynumber: 2.1 Consensus size: 261
31285518 ATAAGATTCA
* * * *
31285528 CCATCTTCGATCTGCTCCACTACTGCTTAGGGGGACAGAATCTGCAATCTTCAATCTATTTCACT
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGAAAGAATATGCAATCTTCAATCTATTCCACT
* *
31285593 GCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACCCCATTGTAACCACAGGGAGGTAAAATC
66 GCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACCCCACTATAACCACAGGGAGGTAAAATC
* * * *
31285658 CGTCATCTTCGATCTGCT-C-ACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATT-TCAC
131 CGCCATATTCCATCTGCTCCTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCT-AC
* **
31285720 TGCTGC-CCAGGGAAATAGAATTATTGGCTTCAATGTACTCCACTGTAA-CTATGGGGAGGTAAA
195 TG--GCACCAGGGAAATAGAATTACTGGCTTCAATGTACTCCACTGTAATC-ACAGGGAGGTAAA
31285783 ATCCG
257 ATCCG
* * *
31285788 CCATCTTCGTTCTGTTCCACTACTGCTTAGGGAGATAAG-ATATGTAATCTTCAATCTATTCCAC
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGA-AAGAATATGCAATCTTCAATCTATTCCAC
*
31285852 TGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAAT
65 TGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACCCCACTATAACCACAGGGAGGTAAAAT
31285917 CCGCCATATTCCATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCT
130 CCGCCATATTCCATCTGCT-C-CTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCT
* * *
31285982 ATTGGCAATCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAA
193 ACTGGC-ACCAGGGAAATAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAA
*
31286047 ATCTG
257 ATCCG
*
31286052 CCATCTTCGATCTACTCC
1 CCATCTTCGATCTGCTCC
31286070 GCTGTCGATG
Statistics
Matches: 249, Mismatches: 24, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
260 132 0.53
261 2 0.01
262 2 0.01
263 1 0.00
264 110 0.44
265 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (261 bp):
CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGAAAGAATATGCAATCTTCAATCTATTCCACT
GCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACCCCACTATAACCACAGGGAGGTAAAATC
CGCCATATTCCATCTGCTCCTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCTACT
GGCACCAGGGAAATAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCC
G
Found at i:31286024 original size:132 final size:131
Alignment explanation
Indices: 31285528--31286069 Score: 756
Period size: 132 Copynumber: 4.1 Consensus size: 131
31285518 ATAAGATTCA
* * *
31285528 CCATCTTCGATCTGCTCCACTACTGCTTAGGGGGA-CAGAATCTGCAATCTTCAATCTATTTCAC
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG-ATCTGTAATCTTCAATCTATTTCAC
* *
31285592 TGCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACCCCATTGTAACCACAGGGAGGTAAAAT
65 TGC-GCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAAT
31285657 CCG
129 CCG
*
31285660 TCATCTTCGATCTGCT---C-ACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTTCACT
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTTCACT
* * **
31285721 GCTGCCCAGGGAAATAGAATTATTGGCTTCAATGTACTCCACTGTAACTATGGGGAGGTAAAATC
66 GC-GCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATC
31285786 CG
130 CG
* * * *
31285788 CCATCTTCGTTCTGTTCCACTACTGCTTAGGGAGATAAGATATGTAATCTTCAATCTATTCCACT
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTTCACT
*
31285853 GCTGCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATC
66 GC-GCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATC
31285918 CG
130 CG
* * * *
31285920 CCATATTCCATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTA-TTCTAT
1 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTTC-AC
* * *
31285984 TG-GCAATCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAA
65 TGCGC--CCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAA
*
31286048 TCTG
128 TCCG
*
31286052 CCATCTTCGATCTACTCC
1 CCATCTTCGATCTGCTCC
31286070 GCTGTCGATG
Statistics
Matches: 366, Mismatches: 36, Indels: 16
0.88 0.09 0.04
Matches are distributed among these distances:
128 112 0.31
129 3 0.01
130 2 0.01
131 3 0.01
132 246 0.67
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (131 bp):
CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTTCACT
GCGCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCC
G
Found at i:31286343 original size:46 final size:46
Alignment explanation
Indices: 31286168--31286929 Score: 864
Period size: 46 Copynumber: 16.7 Consensus size: 46
31286158 GCTGTCGATG
* * * * * *
31286168 CAGGAAGGCAAAATCTCCTATCTTC-AGTCTGCTCCGCTGTC-AGTA
1 CAGGAAGACAAGATCTGCTATCTTCGA-TCTACTCCGCTGCCAAATA
* * * * * *
31286213 CAGGAAGGCAAG-GCTGCTATCTT-TAGTCTACTCAGCTGTC-AGTA
1 CAGGAAGACAAGATCTGCTATCTTCGA-TCTACTCCGCTGCCAAATA
* * * * *
31286257 CAGGAAGGCAAGA-CTGGTTTCTTCGATCTATTCCGTTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
31286302 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
* *
31286348 CAGGAAGACAAGATCTGCTATATCTTCGATCTACTCCACAGCCAAATA
1 CAGGAAGACAAGATCTGC--TATCTTCGATCTACTCCGCTGCCAAATA
31286396 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
* * *
31286442 CAGGAAGACAAGATCTACTATCTTTGATCTACTCCACTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
* * *
31286488 CAAGAAGACAAAATCTGCTATCTTGGATCTACTCCGCTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
* * * * * *
31286534 AAGGAAGACAAAATCTCCTATCTTC-AGTCTGCTCCGCTGTC-AGTA
1 CAGGAAGACAAGATCTGCTATCTTCGA-TCTACTCCGCTGCCAAATA
* * * * ** *
31286579 CAGGAAGGCAAG-GCTGCTATCTT-TAGTCTACTCAGCTATC-AGTA
1 CAGGAAGACAAGATCTGCTATCTTCGA-TCTACTCCGCTGCCAAATA
* * * ** ***
31286623 CAGGAAGGCAAGA-CTGGTTTCTTCGATCTTTTCTTTTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
* *
31286668 CAGGAAGACAAGATCTGCTATCTTGGATCTATTCCGCTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
*
31286714 TAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
* * *
31286760 AAGAAAGACAAGATCTGCTATCTTCGATCTACTCTGCTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
* *
31286806 CAGGAAGACAAGATCTACTATCTTCGATCTACTCCGCTGCTAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
* *
31286852 CAAGAAGACAAGATCTGCTATCTTCGATCTACTCCACTGCCAAATA
1 CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
31286898 CAGGAAGACAAGATCTGCTATATCTTCGATCT
1 CAGGAAGACAAGATCTGC--TATCTTCGATCT
31286930 GTTCTCTGCG
Statistics
Matches: 622, Mismatches: 80, Indels: 27
0.85 0.11 0.04
Matches are distributed among these distances:
44 110 0.18
45 56 0.09
46 400 0.64
48 56 0.09
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (46 bp):
CAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATA
Found at i:31286924 original size:366 final size:365
Alignment explanation
Indices: 31286169--31286924 Score: 1271
Period size: 366 Copynumber: 2.1 Consensus size: 365
31286159 CTGTCGATGC
* *
31286169 AGGAAGGCAAAATCTCCTATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTGCTATC
1 AGGAAGACAAAATCTCATATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTGCTATC
*
31286234 TTTAGTCTACTCAGCTGTCAGTACAGGAAGGCAAGACTGGTTTCTTCGATCTATTCCGTTGCCAA
66 TTTAGTCTACTCAGCTATCAGTACAGGAAGGCAAGACTGGTTTCTTCGATCTATTCCGTTGCCAA
31286299 ATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCT
131 ATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCT
* *
31286364 GCTATATCTTCGATCTACTCCACAGCCAAATACAGGAAGACAAGATCTGCTATCTTCGATCTACT
196 GC-ATATCTTCGATCTACTCCACAGCCAAATAAAGAAAGACAAGATCTGCTATCTTCGATCTACT
*
31286429 CCGCTGCCAAATACAGGAAGACAAGATCTACTATCTTTGATCTACTCCACTGCCAAATACAAGAA
260 CCGCTGCCAAATACAGGAAGACAAGATCTACTATCTTCGATCTACTCCACTGCCAAATACAAGAA
* *
31286494 GACAAAATCTGCTATCTTGGATCTACTCCGCTGCCAAATAA
325 GACAAAATCTGCTATCTTCGATCTACTCCACTGCCAAATAA
*
31286535 AGGAAGACAAAATCTCCTATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTGCTATC
1 AGGAAGACAAAATCTCATATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTGCTATC
* **
31286600 TTTAGTCTACTCAGCTATCAGTACAGGAAGGCAAGACTGGTTTCTTCGATCTTTTCTTTTGCCAA
66 TTTAGTCTACTCAGCTATCAGTACAGGAAGGCAAGACTGGTTTCTTCGATCTATTCCGTTGCCAA
* * *
31286665 ATACAGGAAGACAAGATCTGCTATCTTGGATCTATTCCGCTGCCAAATATAGGAAGACAAGATCT
131 ATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCT
* *
31286730 GC-TATCTTCGATCTACTCCGCTGCCAAATAAAGAAAGACAAGATCTGCTATCTTCGATCTACTC
196 GCATATCTTCGATCTACTCCACAGCCAAATAAAGAAAGACAAGATCTGCTATCTTCGATCTACTC
* * *
31286794 TGCTGCCAAATACAGGAAGACAAGATCTACTATCTTCGATCTACTCCGCTGCTAAATACAAGAAG
261 CGCTGCCAAATACAGGAAGACAAGATCTACTATCTTCGATCTACTCCACTGCCAAATACAAGAAG
* *
31286859 ACAAGATCTGCTATCTTCGATCTACTCCACTGCCAAATAC
326 ACAAAATCTGCTATCTTCGATCTACTCCACTGCCAAATAA
*
31286899 AGGAAGACAAGATCTGCTATATCTTC
1 AGGAAGACAAAATCT-C-ATATCTTC
31286925 GATCTGTTCT
Statistics
Matches: 366, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
364 169 0.46
365 1 0.00
366 196 0.54
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (365 bp):
AGGAAGACAAAATCTCATATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTGCTATC
TTTAGTCTACTCAGCTATCAGTACAGGAAGGCAAGACTGGTTTCTTCGATCTATTCCGTTGCCAA
ATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAATACAGGAAGACAAGATCT
GCATATCTTCGATCTACTCCACAGCCAAATAAAGAAAGACAAGATCTGCTATCTTCGATCTACTC
CGCTGCCAAATACAGGAAGACAAGATCTACTATCTTCGATCTACTCCACTGCCAAATACAAGAAG
ACAAAATCTGCTATCTTCGATCTACTCCACTGCCAAATAA
Found at i:31288179 original size:6 final size:6
Alignment explanation
Indices: 31288168--31288222 Score: 74
Period size: 6 Copynumber: 9.0 Consensus size: 6
31288158 TTGGCCTCTC
* * *
31288168 CTTTTT CTTTTT CTTTTCT CTTCTT CTTTCT CTTCTT CTTTTT CTTTTT
1 CTTTTT CTTTTT CTTTT-T CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
31288217 CTTTTT
1 CTTTTT
31288223 GGTATTTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
6 37 0.88
7 5 0.12
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (6 bp):
CTTTTT
Found at i:31291372 original size:109 final size:109
Alignment explanation
Indices: 31291111--31291650 Score: 843
Period size: 109 Copynumber: 5.0 Consensus size: 109
31291101 TGGATTAAAA
* * * *
31291111 TTTAAGAGGATATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCCAACACATTAGGGCACAT
1 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
* * * * * *
31291174 TTCCTCGAATTTCCAAACGTAAAATATTGTCTTA-TTTCAAAAT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
* * * * **
31291217 TTTAAAAGGATATTTGGCTATTTGATCGAACGAAAAAAATCGAAACCCTGCACATTAGGGCACGT
1 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
31291282 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
* *
31291326 TTTAAAAGGATATTTAGCTATTTGATCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
1 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
31291391 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
*
31291435 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTTGGGCACGT
1 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
31291500 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
31291544 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
1 TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
* * * * *
31291609 TTTCTCGATTTTCTAAATGCAAAATATTGCCTTACTTTGAAA
66 TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA
31291651 AATTTTCCTT
Statistics
Matches: 404, Mismatches: 27, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
106 29 0.07
108 56 0.14
109 319 0.79
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (109 bp):
TTTAAAAGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
TTTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATT
Found at i:31291729 original size:15 final size:15
Alignment explanation
Indices: 31291705--31291735 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31291695 AATAAATATG
*
31291705 ATAATGTGAACAAAA
1 ATAATATGAACAAAA
31291720 ATAATATGAACAAAA
1 ATAATATGAACAAAA
31291735 A
1 A
31291736 CAAATAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.10, T:0.19
Consensus pattern (15 bp):
ATAATATGAACAAAA
Found at i:31291741 original size:16 final size:17
Alignment explanation
Indices: 31291711--31291756 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
31291701 TATGATAATG
*
31291711 TGAACAAAAA-TAAT-A
1 TGAACAAAAACAAATAA
31291726 TGAACAAAAACAAATAA
1 TGAACAAAAACAAATAA
*
31291743 T-AATAAAAACAAAT
1 TGAACAAAAACAAAT
31291757 CAATCATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 10 0.37
16 15 0.56
17 2 0.07
ACGTcount: A:0.70, C:0.09, G:0.04, T:0.17
Consensus pattern (17 bp):
TGAACAAAAACAAATAA
Found at i:31291753 original size:22 final size:21
Alignment explanation
Indices: 31291713--31291755 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
31291703 TGATAATGTG
**
31291713 AACAAAAATAATATGAACAAA
1 AACAAAAATAATAAAAACAAA
31291734 AACAAATAATAATAAAAACAAA
1 AACAAA-AATAATAAAAACAAA
31291756 TCAATCATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.74, C:0.09, G:0.02, T:0.14
Consensus pattern (21 bp):
AACAAAAATAATAAAAACAAA
Found at i:31291787 original size:4 final size:4
Alignment explanation
Indices: 31291778--31291813 Score: 63
Period size: 4 Copynumber: 8.8 Consensus size: 4
31291768 ATACCATGAC
31291778 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAACT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA-T AAA
31291814 CCATAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:31296051 original size:12 final size:12
Alignment explanation
Indices: 31296030--31296066 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
31296020 ATATGGATAG
*
31296030 GTATGAGTATGA
1 GTATGGGTATGA
*
31296042 GTATGGGTATGG
1 GTATGGGTATGA
31296054 GTATGGGTATGA
1 GTATGGGTATGA
31296066 G
1 G
31296067 GAAGAGTCGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.32
Consensus pattern (12 bp):
GTATGGGTATGA
Found at i:31296052 original size:18 final size:18
Alignment explanation
Indices: 31296029--31296064 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
31296019 GATATGGATA
31296029 GGTATGAGTATGAGTATG
1 GGTATGAGTATGAGTATG
* *
31296047 GGTATGGGTATGGGTATG
1 GGTATGAGTATGAGTATG
31296065 AGGAAGAGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.33
Consensus pattern (18 bp):
GGTATGAGTATGAGTATG
Found at i:31297497 original size:53 final size:53
Alignment explanation
Indices: 31297435--31297543 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
31297425 TTTTCACATC
31297435 ATTCATGAGCTCTCCTCACCAATTGTACATATAATGTGAAAAAAAATATGTTT
1 ATTCATGAGCTCTCCTCACCAATTGTACATATAATGTGAAAAAAAATATGTTT
31297488 ATTCATGAGCTCTCCTCACCAATTGTACATATAATGTGAAAAAAAATATGTTT
1 ATTCATGAGCTCTCCTCACCAATTGTACATATAATGTGAAAAAAAATATGTTT
31297541 ATT
1 ATT
31297544 TTTAATTGGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.35
Consensus pattern (53 bp):
ATTCATGAGCTCTCCTCACCAATTGTACATATAATGTGAAAAAAAATATGTTT
Found at i:31308927 original size:19 final size:19
Alignment explanation
Indices: 31308903--31308980 Score: 86
Period size: 20 Copynumber: 4.0 Consensus size: 19
31308893 TGACTTGTTT
31308903 TTAAAATCATTTTGA-TGTG
1 TTAAAATCATTTTGACT-TG
* *
31308922 TTAAAATGATTTTAACTTG
1 TTAAAATCATTTTGACTTG
31308941 ATTAAAATCATTTTGACTTGG
1 -TTAAAATCATTTTGACTT-G
* *
31308962 TTAAAATCAATTTCACTTG
1 TTAAAATCATTTTGACTTG
31308981 ATTTTAAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
19 16 0.32
20 33 0.66
21 1 0.02
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.45
Consensus pattern (19 bp):
TTAAAATCATTTTGACTTG
Found at i:31308951 original size:39 final size:40
Alignment explanation
Indices: 31308903--31308983 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
31308893 TGACTTGTTT
* *
31308903 TTAAAATCATTTTGA--TGTGTTAAAATGATTTTAACTTGA
1 TTAAAATCATTTTGACTTG-GTTAAAATCAATTTAACTTGA
*
31308942 TTAAAATCATTTTGACTTGGTTAAAATCAATTTCACTTGA
1 TTAAAATCATTTTGACTTGGTTAAAATCAATTTAACTTGA
31308982 TT
1 TT
31308984 TTAAAATTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 15 0.41
40 20 0.54
41 2 0.05
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.46
Consensus pattern (40 bp):
TTAAAATCATTTTGACTTGGTTAAAATCAATTTAACTTGA
Found at i:31309337 original size:11 final size:11
Alignment explanation
Indices: 31309323--31309347 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
31309313 ATCATTAAAG
31309323 AATAATCAATC
1 AATAATCAATC
31309334 AATAATCAATC
1 AATAATCAATC
31309345 AAT
1 AAT
31309348 TTACCTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (11 bp):
AATAATCAATC
Found at i:31311623 original size:27 final size:27
Alignment explanation
Indices: 31311593--31311766 Score: 206
Period size: 27 Copynumber: 6.4 Consensus size: 27
31311583 TTGTACAGCG
*
31311593 CTAAGTGTGCGATTTGACTATGTTGCA
1 CTAAGTGTGCGATTTGACTATGTAGCA
** *
31311620 CTAAGTGTGCGAAATGAATATG-ATGCA
1 CTAAGTGTGCGATTTGACTATGTA-GCA
* * **
31311647 CTAAGTGTGCGAATTGACCATGCGGCA
1 CTAAGTGTGCGATTTGACTATGTAGCA
31311674 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGA-TTTGACTATGTAGCA
*
31311702 CTAAGTGTGCGATTTGATTATGTAGCA
1 CTAAGTGTGCGATTTGACTATGTAGCA
* * *
31311729 CTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGATTTGACTATGTAGCA
*
31311756 CTGAGTGTGCG
1 CTAAGTGTGCG
31311767 GACTCGATAT
Statistics
Matches: 128, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
CTAAGTGTGCGATTTGACTATGTAGCA
Found at i:31311703 original size:82 final size:81
Alignment explanation
Indices: 31311593--31311745 Score: 236
Period size: 82 Copynumber: 1.9 Consensus size: 81
31311583 TTGTACAGCG
*
31311593 CTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGC
1 CTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTGTGC
31311657 GAATTGACCATGCGGCA
65 GAATTGACCATGCGGCA
** *
31311674 CTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTGTGC
1 CTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGTGC
*
31311739 GAGTTGA
65 GAATTGA
31311746 TTATATAGCA
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 12 0.18
82 52 0.80
83 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (81 bp):
CTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGTGCG
AATTGACCATGCGGCA
Found at i:31311757 original size:82 final size:81
Alignment explanation
Indices: 31311586--31311766 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
31311576 GATTACATTG
* *
31311586 TACAGCGCTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
31311651 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
31311667 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
31311731 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
31311749 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
31311767 GACTCGATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 17 0.20
82 67 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31315784 original size:20 final size:21
Alignment explanation
Indices: 31315751--31315790 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
31315741 AAATACCTAA
31315751 ATTTAAAGTGTCTC-TAAGGT
1 ATTTAAAGTGTCTCTTAAGGT
31315771 ATTTAAAGAT-TCTCTTAAGG
1 ATTTAAAG-TGTCTCTTAAGG
31315791 GCTTGCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (21 bp):
ATTTAAAGTGTCTCTTAAGGT
Found at i:31318857 original size:21 final size:21
Alignment explanation
Indices: 31318833--31318910 Score: 65
Period size: 20 Copynumber: 3.9 Consensus size: 21
31318823 GCCTGGAGCA
*
31318833 ATTTTGACTTGTTTTAAAATC
1 ATTTTGACTTGTGTTAAAATC
*
31318854 ATTTTGA--TGTGTTAAAATG
1 ATTTTGACTTGTGTTAAAATC
* * * *
31318873 ATTTTAACTTG-ATTGAAATT
1 ATTTTGACTTGTGTTAAAATC
*
31318893 ATTTTGGCTTG-GTTAAAA
1 ATTTTGACTTGTGTTAAAA
31318911 CTAATTTCAC
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
19 16 0.36
20 20 0.44
21 9 0.20
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (21 bp):
ATTTTGACTTGTGTTAAAATC
Found at i:31320616 original size:157 final size:157
Alignment explanation
Indices: 31320330--31320643 Score: 619
Period size: 157 Copynumber: 2.0 Consensus size: 157
31320320 GAGAGATTAG
*
31320330 GGAATGTCGAACATAGCTACATTCACCGTAGATAGCGTGGTGTGTTTGGAGAGTGTGAGCAATCG
1 GGAATGTCAAACATAGCTACATTCACCGTAGATAGCGTGGTGTGTTTGGAGAGTGTGAGCAATCG
31320395 TGCTACACTTACATGGAGATAGTGTACGACTTTATGAGTCATGAGGAGTGTTTGGAGATTTGTTT
66 TGCTACACTTACATGGAGATAGTGTACGACTTTATGAGTCATGAGGAGTGTTTGGAGATTTGTTT
31320460 ATCTAGTGTATTATTGATTATATATAT
131 ATCTAGTGTATTATTGATTATATATAT
31320487 GGAATGTCAAACATAGCTACATTCACCGTAGATAGCGTGGTGTGTTTGGAGAGTGTGAGCAATCG
1 GGAATGTCAAACATAGCTACATTCACCGTAGATAGCGTGGTGTGTTTGGAGAGTGTGAGCAATCG
31320552 TGCTACACTTACATGGAGATAGTGTACGACTTTATGAGTCATGAGGAGTGTTTGGAGATTTGTTT
66 TGCTACACTTACATGGAGATAGTGTACGACTTTATGAGTCATGAGGAGTGTTTGGAGATTTGTTT
31320617 ATCTAGTGTATTATTGATTATATATAT
131 ATCTAGTGTATTATTGATTATATATAT
31320644 TCCATGTCAC
Statistics
Matches: 156, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
157 156 1.00
ACGTcount: A:0.27, C:0.11, G:0.26, T:0.35
Consensus pattern (157 bp):
GGAATGTCAAACATAGCTACATTCACCGTAGATAGCGTGGTGTGTTTGGAGAGTGTGAGCAATCG
TGCTACACTTACATGGAGATAGTGTACGACTTTATGAGTCATGAGGAGTGTTTGGAGATTTGTTT
ATCTAGTGTATTATTGATTATATATAT
Found at i:31322735 original size:493 final size:493
Alignment explanation
Indices: 31321809--31322792 Score: 1689
Period size: 493 Copynumber: 2.0 Consensus size: 493
31321799 ATTTTTACGG
31321809 GTACTTCCTCAACACCAATATATATTATGACATAGTCAAATTGCTAATTTTAATGTACTCGTGCT
1 GTACTTCCTCAACACCAATATATATTATGACATAGTCAAATTGCTAATTTTAATGTACTCGTGCT
* *
31321874 GTTGCAGGTATTTCACGGGATCATCTGAAATTGGGTTTGGAGATGATGGCGAACATAATACTACC
66 GTTGCAGGTATTTCACGGAATCATCTGAAATTGGGTTTGGACATGATGGCGAACATAATACTACC
* * * *
31321939 TATTGTTAAAGTGAGTCCCAATATTGCTGTGTCGATTGTAATTGCAAATATTCGTAGCTAGTTTG
131 TATTGTTAAAGCGAGTCCCAATATTGCTGTGCCGATTGTAATTGCAAATATTCATAGCTAGTTCG
*
31322004 ATTACATGCCTTTCTACCGCAAGGTGTGGATTGCAAAGCATAAGGCATTGGAGAAGATGTATAGT
196 ATTACATGCCTTTCTACCGCAAGGTGTGGATTGCAAAGCATAAGGCATTGGAGAAGATGCATAGT
* * * *
31322069 GAGTGGGATGCGTCGTACAACTAGGTATGGCAGTGGTGTCGGATGCTGGACAGATACGTCTCAAG
261 GAGTGGGACGCGTCGTACAACAAGGTATGACAGTGGTGTCGGATGCTGGACACATACGTCTCAAG
* * * *
31322134 TTGCGTAACCGATCGAGAAATGGGGCCTGTTTACTACAACGATTGGTTCCTCCATGGATGTCAAG
326 TTGCGTAACCGATCGAGAAATGAGGCATGTGTACTACAACGATCGGTTCCTCCATGGATGTCAAG
* * *
31322199 TTTTCCTCCGTTTGTTCTAGACTTTCAAGCAATGCCGATAAGCATTCTAGTTGCAAGCTACTGGT
391 TGTTCCTCCGTTTGTTCTAGAATTTCAAGCAATGCCGATAAGCATTCTAGTTGCAAGCCACTGGT
* *
31322264 ACAAATCAACTAGTCCTTTTTGTACGAGAGATATACAT
456 ACAAATCAACAAGTCCTTTGTGTACGAGAGATATACAT
*
31322302 GTACTTCCTCAACACCAATATATATTATGACATAGTCGAATTGCTAATTTTAATGTACTCGTGCT
1 GTACTTCCTCAACACCAATATATATTATGACATAGTCAAATTGCTAATTTTAATGTACTCGTGCT
*
31322367 GTTGCAGGTATTTCACGGAATCATTTGAAATTGGGTTTGGACATGATGGCGAACATAATACTACC
66 GTTGCAGGTATTTCACGGAATCATCTGAAATTGGGTTTGGACATGATGGCGAACATAATACTACC
* *
31322432 TATTGTTAAAGCGAGTCCCAATATTGTTGTGCCGGTTGTAATTGCAAATATTCATAGCTAGTTCG
131 TATTGTTAAAGCGAGTCCCAATATTGCTGTGCCGATTGTAATTGCAAATATTCATAGCTAGTTCG
* *
31322497 ATTACATGCCTTTGTACCGCAAGGTGTGGATTGCAAAGTATAAGGCATTGGAGAAGATGCATAGT
196 ATTACATGCCTTTCTACCGCAAGGTGTGGATTGCAAAGCATAAGGCATTGGAGAAGATGCATAGT
31322562 GAGTGGGACGCGTCGTACAACAAGGTATGACAGTGGTGTCGGATGCTGGACACATACGTCTCAAG
261 GAGTGGGACGCGTCGTACAACAAGGTATGACAGTGGTGTCGGATGCTGGACACATACGTCTCAAG
* * * *
31322627 TTGCGTAACCGATCTAGAAATGAGGCATGTGTACTACAATGATCGGTTGCTCTATGGATGTCAAG
326 TTGCGTAACCGATCGAGAAATGAGGCATGTGTACTACAACGATCGGTTCCTCCATGGATGTCAAG
*
31322692 TGTTCCTCCGTTTGTTCTAGAATTTCAAGCAATGTCGATAAGCATTCTAGTTGCAAGCCACTGGT
391 TGTTCCTCCGTTTGTTCTAGAATTTCAAGCAATGCCGATAAGCATTCTAGTTGCAAGCCACTGGT
31322757 ACAAATCAACAAGTCCTTTGTGTACGAGAGATATAC
456 ACAAATCAACAAGTCCTTTGTGTACGAGAGATATAC
31322793 CTATCGGTTG
Statistics
Matches: 460, Mismatches: 31, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
493 460 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (493 bp):
GTACTTCCTCAACACCAATATATATTATGACATAGTCAAATTGCTAATTTTAATGTACTCGTGCT
GTTGCAGGTATTTCACGGAATCATCTGAAATTGGGTTTGGACATGATGGCGAACATAATACTACC
TATTGTTAAAGCGAGTCCCAATATTGCTGTGCCGATTGTAATTGCAAATATTCATAGCTAGTTCG
ATTACATGCCTTTCTACCGCAAGGTGTGGATTGCAAAGCATAAGGCATTGGAGAAGATGCATAGT
GAGTGGGACGCGTCGTACAACAAGGTATGACAGTGGTGTCGGATGCTGGACACATACGTCTCAAG
TTGCGTAACCGATCGAGAAATGAGGCATGTGTACTACAACGATCGGTTCCTCCATGGATGTCAAG
TGTTCCTCCGTTTGTTCTAGAATTTCAAGCAATGCCGATAAGCATTCTAGTTGCAAGCCACTGGT
ACAAATCAACAAGTCCTTTGTGTACGAGAGATATACAT
Found at i:31326424 original size:17 final size:18
Alignment explanation
Indices: 31326404--31326442 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
31326394 TTTAATAAAA
*
31326404 AAATAAAAATT-AGTGAG
1 AAATAAAAATTAAGTAAG
*
31326421 AAATAAAATTTAAGTAAG
1 AAATAAAAATTAAGTAAG
31326439 AAAT
1 AAAT
31326443 TAAGAAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.26
Consensus pattern (18 bp):
AAATAAAAATTAAGTAAG
Found at i:31327091 original size:29 final size:28
Alignment explanation
Indices: 31327059--31327120 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
31327049 AAAAGCCGGT
31327059 TTTTTTCAAAATTTACTGAAATGGGCCGA
1 TTTTTTCAAAATTTACTGAAATGGGCC-A
* ** *
31327088 TTTTTTGATTATTTACTGGAATGGGCCA
1 TTTTTTCAAAATTTACTGAAATGGGCCA
31327116 TTTTT
1 TTTTT
31327121 CGGGAAATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.47
Consensus pattern (28 bp):
TTTTTTCAAAATTTACTGAAATGGGCCA
Found at i:31327420 original size:51 final size:52
Alignment explanation
Indices: 31327344--31327458 Score: 198
Period size: 51 Copynumber: 2.2 Consensus size: 52
31327334 TCCTCTCTAA
31327344 TCCTCTCAATTTCCTTCCAAAATTCTCTAAAACCCATATTTAATTTC-ATTT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTAAAACCCATATTTAATTTCAATTT
* *
31327395 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTAAAACCCATATTTAATTTCAATTT
31327447 TCC-CTCAATTTC
1 TCCTCTCAATTTC
31327459 ATTTTTTAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
51 54 0.89
52 7 0.11
ACGTcount: A:0.28, C:0.29, G:0.00, T:0.43
Consensus pattern (52 bp):
TCCTCTCAATTTCCTTCCAAAATTCTCTAAAACCCATATTTAATTTCAATTT
Found at i:31329278 original size:18 final size:18
Alignment explanation
Indices: 31329252--31329286 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31329242 AGGTGTGTTT
* *
31329252 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
31329270 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
31329287 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:31329728 original size:25 final size:26
Alignment explanation
Indices: 31329700--31329758 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
31329690 TTATCTGATG
*
31329700 TAATAAAATAGAA-TTTTATTTAATA
1 TAATAAAATAGAAGTTCTATTTAATA
* *
31329725 TAATAAAATAGAAGTTCTATTTGATG
1 TAATAAAATAGAAGTTCTATTTAATA
31329751 TAATAAAA
1 TAATAAAA
31329759 ACCCTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 13 0.43
26 17 0.57
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (26 bp):
TAATAAAATAGAAGTTCTATTTAATA
Found at i:31329794 original size:29 final size:28
Alignment explanation
Indices: 31329761--31329842 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 28
31329751 TAATAAAAAC
31329761 CCTAATTTATTTTAAAACCCTAACCCTAA
1 CCTAATTTA-TTTAAAACCCTAACCCTAA
*
31329790 CCTAATTTAATTAAAATCCCTAACCCTAA
1 CCTAATTTATTTAAAA-CCCTAACCCTAA
* *
31329819 CCTAACTTAGTTAAAAACCCTAAC
1 CCTAATTTA-TTTAAAACCCTAAC
31329843 TTAATTAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
28 6 0.13
29 36 0.77
30 5 0.11
ACGTcount: A:0.40, C:0.28, G:0.01, T:0.30
Consensus pattern (28 bp):
CCTAATTTATTTAAAACCCTAACCCTAA
Found at i:31329837 original size:76 final size:75
Alignment explanation
Indices: 31329754--31330041 Score: 368
Period size: 76 Copynumber: 3.8 Consensus size: 75
31329744 TTTGATGTAA
* * * *
31329754 TAAAAACCCTAATTTATTTTAAAACCCTAACCCTAACCTAATTTAATTAAAATCCCTAACCCTAA
1 TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
*
31329819 CCTAACTTAGT
66 CCTAA-TTAAT
* *
31329830 TAAAAACCCTAACTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CTTAA
1 TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* * *
31329894 -TTAA-AAACCC
66 CCTAATTAA--T
* *
31329904 TAACCCTAA-CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTTAAAACCCTAACCC
1 TAA---AAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCC
31329968 TAACCTAATTTAAT
63 TAACCTAA-TTAAT
*
31329982 TAAAAACCCTAACTTAATTAAAAATCCTAACCCTAACCTAATTTAATTAAAAACCCTAAC
1 TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAC
31330042 TTAATTAAAA
Statistics
Matches: 182, Mismatches: 20, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
72 1 0.01
74 6 0.03
75 6 0.03
76 155 0.85
77 6 0.03
78 6 0.03
80 2 0.01
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.28
Consensus pattern (75 bp):
TAAAAACCCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA
CCTAATTAAT
Found at i:31329841 original size:47 final size:47
Alignment explanation
Indices: 31329790--31330072 Score: 404
Period size: 47 Copynumber: 5.8 Consensus size: 47
31329780 CTAACCCTAA
* * * *
31329790 CCTAATTTAATTAAAATCCCTAACCCTAACCTAACTTAGTTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
*
31329837 CCTAACTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
*
31329884 CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
31329931 CCTAACCCTAACCTAATTTAATTTAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAA--CT----TAA-TT-A---AAAACCCTAACCCTAACCTAATTTAATTAAAAAC
*
31329989 CCTAACTTAATTAAAAATCCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
31330036 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTT
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTT
31330073 TACATAATTT
Statistics
Matches: 215, Mismatches: 10, Indels: 22
0.87 0.04 0.09
Matches are distributed among these distances:
47 161 0.75
49 2 0.01
50 1 0.00
51 2 0.01
52 3 0.01
53 3 0.01
54 2 0.01
55 1 0.00
56 2 0.01
58 38 0.18
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (47 bp):
CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
Found at i:31329842 original size:18 final size:18
Alignment explanation
Indices: 31329817--31329860 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
31329807 CCCTAACCCT
*
31329817 AACCTAACTTAGTTAAAA
1 AACCTAACTTAATTAAAA
*
31329835 ACCCTAACTTAATTAAAA
1 AACCTAACTTAATTAAAA
31329853 AACCTAAC
1 AACCTAAC
31329861 CCTAACCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.25
Consensus pattern (18 bp):
AACCTAACTTAATTAAAA
Found at i:31329893 original size:18 final size:18
Alignment explanation
Indices: 31329866--31329907 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
31329856 CTAACCCTAA
*
31329866 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
31329884 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
31329902 CCTAAC
1 CCTAAC
31329908 CCTAACCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.29
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:31329916 original size:29 final size:29
Alignment explanation
Indices: 31329884--31329994 Score: 195
Period size: 29 Copynumber: 3.8 Consensus size: 29
31329874 AATTAAAAAC
31329884 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
31329913 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *
31329942 CCTAATTTAATTTAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
31329971 CCTAATTTAATTAAAAACCCTAAC
1 CCTAACTTAATTAAAAACCCTAAC
31329995 TTAATTAAAA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 79 1.00
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.27
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:31329993 original size:152 final size:152
Alignment explanation
Indices: 31329774--31330069 Score: 549
Period size: 152 Copynumber: 1.9 Consensus size: 152
31329764 AATTTATTTT
*
31329774 AAAACCCTAACCCTAACCTAATTTAATTAAAATCCCTAACCCTAACCTAACTTAGTTAAAAACCC
1 AAAACCCTAACCCTAACCTAATTTAATTAAAATCCCTAACCCTAACCTAACTTAATTAAAAACCC
31329839 TAACTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCC
66 TAACTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCC
31329904 TAACCCTAACCTAACTTAATTA
131 TAACCCTAACCTAACTTAATTA
*
31329926 AAAACCCTAACCCTAACCTAATTTAATTTAAAA-CCCTAACCCTAACCTAATTTAATTAAAAACC
1 AAAACCCTAACCCTAACCTAATTTAA-TTAAAATCCCTAACCCTAACCTAACTTAATTAAAAACC
*
31329990 CTAACTTAATTAAAAATCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAACC
65 CTAACTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAACC
31330055 CTAACCCTAACCTAA
130 CTAACCCTAACCTAA
31330070 TTTTACATAA
Statistics
Matches: 140, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
152 134 0.96
153 6 0.04
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (152 bp):
AAAACCCTAACCCTAACCTAATTTAATTAAAATCCCTAACCCTAACCTAACTTAATTAAAAACCC
TAACTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAACCC
TAACCCTAACCTAACTTAATTA
Found at i:31329998 original size:18 final size:18
Alignment explanation
Indices: 31329971--31330059 Score: 84
Period size: 18 Copynumber: 5.3 Consensus size: 18
31329961 CTAACCCTAA
*
31329971 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
*
31329989 CCTAACTTAATTAAAAAT
1 CCTAACTTAATTAAAAAC
**
31330007 CCTAAC---CCT---AA-
1 CCTAACTTAATTAAAAAC
*
31330018 CCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
31330036 CCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAC
31330054 CCTAAC
1 CCTAAC
31330060 CCTAACCTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
11 5 0.09
12 2 0.04
14 1 0.02
15 1 0.02
17 2 0.04
18 45 0.80
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (18 bp):
CCTAACTTAATTAAAAAC
Found at i:31330069 original size:76 final size:76
Alignment explanation
Indices: 31329837--31330069 Score: 314
Period size: 76 Copynumber: 3.1 Consensus size: 76
31329827 AGTTAAAAAC
31329837 CCTAACTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
31329902 CCTAACCCTAA
66 CCTAACCCTAA
* * * *
31329913 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTTAAAACCCTAACCCTAACCTAATT
1 CCTAACTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CTTAA-TTAA--
* * *
31329978 TAA--TTAA---AAA
62 AAACCCTAACCCTAA
*
31329988 CCCTAACTTAATTAAAAATCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAA
1 -CCTAACTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAA
31330053 CCCTAACCCTAA
65 CCCTAACCCTAA
31330065 CCTAA
1 CCTAA
31330070 TTTTACATAA
Statistics
Matches: 133, Mismatches: 14, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
72 2 0.02
74 6 0.05
75 6 0.05
76 105 0.79
77 6 0.05
78 6 0.05
80 2 0.02
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (76 bp):
CCTAACTTAATTAAAAAACCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAATTAAAAAC
CCTAACCCTAA
Found at i:31330127 original size:55 final size:55
Alignment explanation
Indices: 31330067--31330303 Score: 361
Period size: 55 Copynumber: 4.3 Consensus size: 55
31330057 AACCCTAACC
*
31330067 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
31330122 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
** ***
31330177 TAATTTTACATAATTTGATAATTTTATCTAATTTAATTAA-ATTTTTTTTGG-CTTAA
1 TAATTTTACATAATTTGATAATTTTA-CTAA--CCATTAACACAATTTTTGGACTTAA
* *
31330233 TAATTTTACATAATTTGATAATTTTACTAACCATTAACAAAATTTTGGGACTTAA
1 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
31330288 TAATTTTACATAATTT
1 TAATTTTACATAATTT
31330304 TACATAATGT
Statistics
Matches: 165, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
53 5 0.03
54 7 0.04
55 105 0.64
56 35 0.21
57 8 0.05
58 5 0.03
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (55 bp):
TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
Found at i:31330199 original size:18 final size:18
Alignment explanation
Indices: 31330173--31330259 Score: 68
Period size: 18 Copynumber: 4.7 Consensus size: 18
31330163 ATTTTTGGAC
31330173 TTAATAATTTTACATAAT
1 TTAATAATTTTACATAAT
*
31330191 TTGATAATTTTATC-TAAT
1 TTAATAATTTTA-CATAAT
*** ***
31330209 TTAATTAAATTTTTTTTGGC
1 TTAA-T-AATTTTACATAAT
31330229 TTAATAATTTTACATAAT
1 TTAATAATTTTACATAAT
*
31330247 TTGATAATTTTAC
1 TTAATAATTTTAC
31330260 TAACCATTAA
Statistics
Matches: 51, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
18 37 0.73
19 3 0.06
20 11 0.22
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.54
Consensus pattern (18 bp):
TTAATAATTTTACATAAT
Found at i:31330248 original size:111 final size:110
Alignment explanation
Indices: 31330067--31330303 Score: 361
Period size: 111 Copynumber: 2.1 Consensus size: 110
31330057 AACCCTAACC
*
31330067 TAATTTTACATAATTTGATAATTTTACTAACCATTAACACAATTGTTGGACTTAATAATTTTACA
1 TAATTTTACATAATTTGATAATTTTACTAACAATTAACACAATTGTTGGACTTAATAATTTTACA
* *
31330132 TAATTTGATAATTTTACTAACCATTAACACAATTTTTGGACTTAA
66 TAATTTGATAATTTTACTAACCATTAACAAAATTTTGGGACTTAA
* *** *
31330177 TAATTTTACATAATTTGATAATTTTATCTAATTTAATTAA-ATTTTTTTTGG-CTTAATAATTTT
1 TAATTTTACATAATTTGATAATTTTA-CTAA--CAATTAACACAATTGTTGGACTTAATAATTTT
31330240 ACATAATTTGATAATTTTACTAACCATTAACAAAATTTTGGGACTTAA
63 ACATAATTTGATAATTTTACTAACCATTAACAAAATTTTGGGACTTAA
31330288 TAATTTTACATAATTT
1 TAATTTTACATAATTT
31330304 TACATAATGT
Statistics
Matches: 116, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
110 26 0.22
111 78 0.67
112 7 0.06
113 5 0.04
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (110 bp):
TAATTTTACATAATTTGATAATTTTACTAACAATTAACACAATTGTTGGACTTAATAATTTTACA
TAATTTGATAATTTTACTAACCATTAACAAAATTTTGGGACTTAA
Found at i:31330302 original size:10 final size:10
Alignment explanation
Indices: 31330287--31330311 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
31330277 TTGGGACTTA
31330287 ATAATTTTAC
1 ATAATTTTAC
31330297 ATAATTTTAC
1 ATAATTTTAC
31330307 ATAAT
1 ATAAT
31330312 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:31333644 original size:125 final size:125
Alignment explanation
Indices: 31333422--31333772 Score: 571
Period size: 124 Copynumber: 2.8 Consensus size: 125
31333412 CCCAAACTTG
*
31333422 CTACTATAGCAAAATCGCGTCCACGAGGGCGCAATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTATAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
31333487 TAGAGGCGATTTTATACTATTTTCTCAGAAACGTCAAAAAAAAAAGATTTCTTACATGAC
66 TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAAGATTTCTTACATGAC
* *
31333547 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATCTCTTCTCAAATAGCATCCTGG
1 CTACTATAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* **
31333612 TAGAGGCGATTTTTTACTATTTGCTCAGAAACGTC-AAAAAAAATTATTTCTTACATGAC
66 TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAAGATTTCTTACATGAC
* * * *
31333671 CAACTATAGCAAAATTGTGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTAG
1 CTACTATAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
31333736 TAGAAGCGATTTTATACTATTTGAC-CAGAAACGTCAA
66 TAGAGGCGATTTTATACTATTTG-CTCAGAAACGTCAA
31333773 CTCGAAATAA
Statistics
Matches: 209, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
124 112 0.54
125 97 0.46
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (125 bp):
CTACTATAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAAGATTTCTTACATGAC
Found at i:31336197 original size:21 final size:23
Alignment explanation
Indices: 31336173--31336220 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
31336163 TTTAATTAGC
31336173 TAAT-GTCACACT-ATAAAT-TTT
1 TAATAGTCA-ACTAATAAATGTTT
*
31336194 TAATAGTCAACTAATAATTGTTT
1 TAATAGTCAACTAATAAATGTTT
31336217 TAAT
1 TAAT
31336221 TAGAATGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 7 0.30
22 9 0.39
23 7 0.30
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (23 bp):
TAATAGTCAACTAATAAATGTTT
Found at i:31337352 original size:23 final size:23
Alignment explanation
Indices: 31337308--31337395 Score: 81
Period size: 23 Copynumber: 3.8 Consensus size: 23
31337298 TTAATGTTCA
**
31337308 CGAACATGTTCATTTAAC-TTAAT
1 CGAACATGTTCA-CGAACATTAAT
*
31337331 CGAACATGTTCACGAACATTAAA
1 CGAACATGTTCACGAACATTAAT
* *
31337354 CTAACATGTTCATGAACATATAATT
1 CGAACATGTTCACGAACAT-TAA-T
*
31337379 C-AACATGTTCACAAACA
1 CGAACATGTTCACGAACA
31337396 ATGTTAATAA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
22 3 0.06
23 33 0.61
24 17 0.31
25 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (23 bp):
CGAACATGTTCACGAACATTAAT
Found at i:31341066 original size:6 final size:6
Alignment explanation
Indices: 31341055--31341081 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
31341045 AAGTTTACCC
31341055 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
31341082 GGTAGAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:31348294 original size:18 final size:18
Alignment explanation
Indices: 31348271--31348320 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
31348261 AATCCCGTCG
31348271 TTCATTTTCAAAACATTA
1 TTCATTTTCAAAACATTA
* * *
31348289 TTCATTTACAAATCGTTA
1 TTCATTTTCAAAACATTA
*
31348307 TTCAATTTCAAAAC
1 TTCATTTTCAAAAC
31348321 GTCTTTTTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.42
Consensus pattern (18 bp):
TTCATTTTCAAAACATTA
Found at i:31360519 original size:12 final size:12
Alignment explanation
Indices: 31360504--31360528 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31360494 CACAAAAATG
31360504 AAAAAAAAAAGA
1 AAAAAAAAAAGA
31360516 AAAAAAAAAAGA
1 AAAAAAAAAAGA
31360528 A
1 A
31360529 GAATAAGAGA
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:31366398 original size:21 final size:21
Alignment explanation
Indices: 31366374--31366418 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
31366364 CTCGCTTTCC
31366374 TTTCGCCTTTTTCACTTTTAT
1 TTTCGCCTTTTTCACTTTTAT
**
31366395 TTTCTTCTTTTTCACTTTTAT
1 TTTCGCCTTTTTCACTTTTAT
31366416 TTT
1 TTT
31366419 TCTCTTCTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.20, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTCGCCTTTTTCACTTTTAT
Found at i:31366424 original size:21 final size:22
Alignment explanation
Indices: 31366380--31366421 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
31366370 TTCCTTTCGC
31366380 CTTTTTCACTTTTA-TTTTCTT
1 CTTTTTCACTTTTATTTTTCTT
31366401 CTTTTTCACTTTTATTTTTCT
1 CTTTTTCACTTTTATTTTTCT
31366422 CTTCTCCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (22 bp):
CTTTTTCACTTTTATTTTTCTT
Found at i:31366439 original size:21 final size:20
Alignment explanation
Indices: 31366380--31366439 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
31366370 TTCCTTTCGC
*
31366380 CTTTTTCACTTTTATTTTCTT
1 CTTTCTCACTTTTATTTT-TT
*
31366401 CTTTTTCACTTTTA-TTTTT
1 CTTTCTCACTTTTATTTTTT
31366420 CTCTTCTC-CTTTTTATTTTT
1 CT-TTCTCAC-TTTTATTTTT
31366440 CCTTACTTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 5 0.14
20 12 0.34
21 18 0.51
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.72
Consensus pattern (20 bp):
CTTTCTCACTTTTATTTTTT
Found at i:31385905 original size:3 final size:3
Alignment explanation
Indices: 31385897--31385956 Score: 52
Period size: 3 Copynumber: 19.3 Consensus size: 3
31385887 ATAAATTTCA
* *
31385897 TAT TAT TAT TAT TAT TGAT CAT TAT TAGT T-T TAT TTT TAT T-T TATT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TA-T TAT TAT TAT TAT TAT TA-T
31385943 TAT TCAT TAT TAT T
1 TAT T-AT TAT TAT T
31385957 GTGATAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
2 4 0.09
3 33 0.70
4 10 0.21
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:31386325 original size:24 final size:22
Alignment explanation
Indices: 31386283--31386354 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 22
31386273 TTTATTGTTA
*
31386283 TTATTTTTTTATGTTCATTTAT
1 TTATTTTTTTATGTCCATTTAT
*
31386305 TTATTTATTTATATGTCCATTTTT
1 TTATTT-TTT-TATGTCCATTTAT
* **
31386329 TTA-TGTTTTA-GTTTATTTAT
1 TTATTTTTTTATGTCCATTTAT
31386349 TTATTT
1 TTATTT
31386355 GTTATTGTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
20 10 0.25
21 3 0.08
22 9 0.22
23 4 0.10
24 14 0.35
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.71
Consensus pattern (22 bp):
TTATTTTTTTATGTCCATTTAT
Found at i:31386406 original size:17 final size:17
Alignment explanation
Indices: 31386384--31386430 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
31386374 GGATTTGTTC
*
31386384 TTTTTTATTATTATTCT
1 TTTTTTATTATTATTAT
*
31386401 TTTTTTACTCA-TATTAT
1 TTTTTTA-TTATTATTAT
31386418 TTTATTTATTATT
1 TTT-TTTATTATT
31386431 CCATTATGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTTATTATTATTAT
Found at i:31386674 original size:110 final size:110
Alignment explanation
Indices: 31386481--31386787 Score: 487
Period size: 110 Copynumber: 2.8 Consensus size: 110
31386471 TTTCTAATTG
* *
31386481 AGGCAATGTTTTGCGTTTGGAAATCCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCT
*
31386546 CGTTCAACCAAATAGCTAAATATCCTTTTAAAAAATTTCAAAATA
66 CGTTCAACCAAATAGCTAAATATCCTTTCAAAAAATTTCAAAATA
* * *
31386591 AGGCAATGTTTTGCGTTTGGCAATTCGAGAAAATGTGCCCTAATGTGCTGAGTTTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCT
*
31386656 CGTTCAACCAAATAGCTAAATATCC-TTCCAAAAATTTCAAAATA
66 CGTTCAACCAAATAGCTAAATATCCTTTCAAAAAATTTCAAAATA
*
31386700 AGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATGTGCTGGGTTTCGA--TTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCT
* * *
31386762 CGTTTAACCAAATTGCCAAATATCCT
66 CGTTCAACCAAATAGCTAAATATCCT
31386788 CTTGAATTTT
Statistics
Matches: 182, Mismatches: 14, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
106 27 0.15
108 25 0.14
109 45 0.25
110 85 0.47
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (110 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCT
CGTTCAACCAAATAGCTAAATATCCTTTCAAAAAATTTCAAAATA
Found at i:31390207 original size:31 final size:32
Alignment explanation
Indices: 31390172--31390232 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
31390162 TTATGTAAAT
*
31390172 ATTTTAA-AAAATATTTTTTTATAA-TTTTATA
1 ATTTTAATAAAAT-TATTTTTATAAGTTTTATA
*
31390203 ATTTTAATACAATTATTTTTATAAGTTTTA
1 ATTTTAATAAAATTATTTTTATAAGTTTTA
31390233 GTTTAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (32 bp):
ATTTTAATAAAATTATTTTTATAAGTTTTATA
Found at i:31390330 original size:10 final size:10
Alignment explanation
Indices: 31390290--31390400 Score: 52
Period size: 10 Copynumber: 11.0 Consensus size: 10
31390280 TTTATGTTTA
31390290 TATAATTTTT
1 TATAATTTTT
*
31390300 TA-AATAATGTT
1 TATAAT--TTTT
* *
31390311 TACAACTTTT
1 TATAATTTTT
31390321 TATAATTTTT
1 TATAATTTTT
*
31390331 AATAATTTTT
1 TATAATTTTT
* *
31390341 AAAATATTTTTT
1 --TATAATTTTT
**
31390353 TATGTTTTTT
1 TATAATTTTT
*
31390363 TAT-GTTTTT
1 TATAATTTTT
31390372 T-TCAA-TTTT
1 TAT-AATTTTT
31390381 TAT-ATTTTT
1 TATAATTTTT
31390390 TAATAATTTTT
1 T-ATAATTTTT
31390401 ATTTAAAAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
8 2 0.03
9 19 0.24
10 36 0.46
11 11 0.14
12 11 0.14
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (10 bp):
TATAATTTTT
Found at i:31390350 original size:29 final size:31
Alignment explanation
Indices: 31390290--31390351 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 31
31390280 TTTATGTTTA
*
31390290 TATAATTTTTTAAATAATGTTTACAACTTTT
1 TATAATTTTTTAAATAATGTTTACAAATTTT
* *
31390321 TATAA-TTTTT-AATAATTTTTAAAATATTTT
1 TATAATTTTTTAAATAATGTTTACAA-ATTTT
31390351 T
1 T
31390352 TTATGTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 12 0.44
30 10 0.37
31 5 0.19
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (31 bp):
TATAATTTTTTAAATAATGTTTACAAATTTT
Found at i:31390361 original size:11 final size:10
Alignment explanation
Indices: 31390347--31390373 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
31390337 TTTTAAAATA
31390347 TTTTTTTATG
1 TTTTTTTATG
31390357 TTTTTTTATG
1 TTTTTTTATG
31390367 TTTTTTT
1 TTTTTTT
31390374 CAATTTTTAT
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:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (10 bp):
TTTTTTTATG
Found at i:31390397 original size:19 final size:19
Alignment explanation
Indices: 31390317--31390402 Score: 68
Period size: 19 Copynumber: 4.4 Consensus size: 19
31390307 TGTTTACAAC
*
31390317 TTTTTATAATTTTTAATAA
1 TTTTTATATTTTTTAATAA
* *
31390336 TTTTTAAAATATTTTTTTAT-G
1 TTTTT---ATATTTTTTAATAA
* *
31390357 TTTTTTTATGTTTTT-TTCAA
1 TTTTTATAT-TTTTTAAT-AA
31390377 TTTTTATATTTTTTAATAA
1 TTTTTATATTTTTTAATAA
31390396 TTTTTAT
1 TTTTTAT
31390403 TTAAAAAAAG
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
18 4 0.08
19 24 0.46
20 9 0.17
21 5 0.10
22 10 0.19
ACGTcount: A:0.27, C:0.01, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTTATATTTTTTAATAA
Found at i:31390622 original size:20 final size:21
Alignment explanation
Indices: 31390584--31390623 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
31390574 ACTTAATAGG
31390584 TTTTGTTTTAATTTATAAGCA
1 TTTTGTTTTAATTTATAAGCA
31390605 TTTT-TTTTATATTT-TAAGC
1 TTTTGTTTTA-ATTTATAAGC
31390624 CCAACGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.62
Consensus pattern (21 bp):
TTTTGTTTTAATTTATAAGCA
Found at i:31394887 original size:24 final size:24
Alignment explanation
Indices: 31394844--31394898 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
31394834 TAAAAAAAAA
*
31394844 TTAATTTAATATAATTATTTTTAT
1 TTAATTTAATATAATAATTTTTAT
31394868 TTAATATTAATATAA-AATTTTTAT
1 TTAAT-TTAATATAATAATTTTTAT
31394892 TTAATTT
1 TTAATTT
31394899 TTACAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 2 0.07
24 18 0.62
25 9 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TTAATTTAATATAATAATTTTTAT
Found at i:31394914 original size:24 final size:24
Alignment explanation
Indices: 31394860--31394915 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
31394850 TAATATAATT
*
31394860 ATTTTTATTTAATATTAATATAAA
1 ATTTTTATTTAATATTAACATAAA
* *
31394884 ATTTTTATTTAATTTTTACA-AAA
1 ATTTTTATTTAATATTAACATAAA
31394907 ATTGTTTAT
1 ATT-TTTAT
31394916 AAGTTTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
ATTTTTATTTAATATTAACATAAA
Found at i:31397730 original size:22 final size:22
Alignment explanation
Indices: 31397704--31397747 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
31397694 CTTGAACATC
31397704 ATATTTTAGCATTATTTAATAT
1 ATATTTTAGCATTATTTAATAT
31397726 ATATTTTAGCATTATTTAATAT
1 ATATTTTAGCATTATTTAATAT
31397748 TAGGCTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (22 bp):
ATATTTTAGCATTATTTAATAT
Found at i:31398415 original size:30 final size:31
Alignment explanation
Indices: 31398380--31398446 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
31398370 TTAAAAACCC
* *
31398380 AGTGACTTAAAT-AAAACTTTTGAATAGTTT
1 AGTGACTTAAATAAAAAATTTCGAATAGTTT
31398410 AGTGACTTAAATAAAAAATTTCGAATAGTTT
1 AGTGACTTAAATAAAAAATTTCGAATAGTTT
31398441 AGTGAC
1 AGTGAC
31398447 CAACTTGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 12 0.35
31 22 0.65
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (31 bp):
AGTGACTTAAATAAAAAATTTCGAATAGTTT
Found at i:31404666 original size:5 final size:5
Alignment explanation
Indices: 31404656--31404702 Score: 60
Period size: 5 Copynumber: 9.4 Consensus size: 5
31404646 ATGATGTGTA
* *
31404656 AATAT AATAT AATA- AATAT AATTAA AATAT AATAT AATAT GATAT AA
1 AATAT AATAT AATAT AATAT AA-TAT AATAT AATAT AATAT AATAT AA
31404703 GCAAATAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 4 0.11
5 28 0.78
6 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (5 bp):
AATAT
Found at i:31405065 original size:25 final size:25
Alignment explanation
Indices: 31405031--31405079 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
31405021 GACGTGGGGT
31405031 GAAGGAAAAAGAGAA-AAAGAAAAAC
1 GAAGGAAAAAGAGAAGAAA-AAAAAC
31405056 GAAGGAAAAAGAGAAGAAAAAAAA
1 GAAGGAAAAAGAGAAGAAAAAAAA
31405080 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.00
Consensus pattern (25 bp):
GAAGGAAAAAGAGAAGAAAAAAAAC
Found at i:31405566 original size:109 final size:109
Alignment explanation
Indices: 31405438--31405637 Score: 373
Period size: 109 Copynumber: 1.8 Consensus size: 109
31405428 TGATTCATTT
31405438 TTATCTATATTAATTATATTTTATTGATATAAAACAATTCCAATTCCATTTAATTTGATCATAAA
1 TTATCTATATTAATTATATTTTATTGATATAAAACAATTCCAATTCCATTTAATTTGATCATAAA
31405503 TACTTTTTAGATGTCTTATAATATATATTTGTACGTCAACTTTA
66 TACTTTTTAGATGTCTTATAATATATATTTGTACGTCAACTTTA
* * *
31405547 TTATCTATATTAATTATATTTTATTGATATAAAACAATTGCAGTTTCATTTAATTTGATCATAAA
1 TTATCTATATTAATTATATTTTATTGATATAAAACAATTCCAATTCCATTTAATTTGATCATAAA
31405612 TACTTTTTAGATGTCTTATAATATAT
66 TACTTTTTAGATGTCTTATAATATAT
31405638 GTTTTTACTT
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
109 88 1.00
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (109 bp):
TTATCTATATTAATTATATTTTATTGATATAAAACAATTCCAATTCCATTTAATTTGATCATAAA
TACTTTTTAGATGTCTTATAATATATATTTGTACGTCAACTTTA
Found at i:31410754 original size:33 final size:32
Alignment explanation
Indices: 31410717--31410792 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 32
31410707 GAGCCCTTTT
31410717 CAGTAACAGAACAATGTGGGCCTTAGCCCAAAA
1 CAGTAACAGAACAATGTGGGCCTTAGCCC-AAA
* *** * *
31410750 CAGTAAAAGTGTAGTGTGGGCCTTAGCCCATA
1 CAGTAACAGAACAATGTGGGCCTTAGCCCAAA
*
31410782 CAGTATCAGAA
1 CAGTAACAGAA
31410793 TTAGAAACAG
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
32 9 0.27
33 24 0.73
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (32 bp):
CAGTAACAGAACAATGTGGGCCTTAGCCCAAA
Found at i:31411125 original size:31 final size:32
Alignment explanation
Indices: 31411081--31411160 Score: 83
Period size: 31 Copynumber: 2.5 Consensus size: 32
31411071 TAAGTACAGC
** *
31411081 AATATGATTGGCACAAACCCATCA-TAGC-AGT
1 AATATGACCGGCACAAACCCATCAGTAACGA-T
* * *
31411112 GATATGACCGGCACACAGCCATCAGTAACGAT
1 AATATGACCGGCACAAACCCATCAGTAACGAT
31411144 AATATGACCGGCACAAA
1 AATATGACCGGCACAAA
31411161 GCTATTAGTA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
31 19 0.49
32 19 0.49
33 1 0.03
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.17
Consensus pattern (32 bp):
AATATGACCGGCACAAACCCATCAGTAACGAT
Found at i:31411265 original size:27 final size:27
Alignment explanation
Indices: 31411207--31411272 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
31411197 TATCGCAGCA
* *
31411207 AAGCTACCAATAATAGTATATGTGGCT
1 AAGCCACCAGTAATAGTATATGTGGCT
31411234 AAGCCACCAGTAATAGTGAT-TGTGGC-
1 AAGCCACCAGTAATAGT-ATATGTGGCT
*
31411260 AGAGCCATCAGTA
1 A-AGCCACCAGTA
31411273 CAATACTTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.03
27 31 0.91
28 2 0.06
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (27 bp):
AAGCCACCAGTAATAGTATATGTGGCT
Found at i:31411402 original size:24 final size:24
Alignment explanation
Indices: 31411347--31411403 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
31411337 TTAGAATAAG
* *
31411347 TCATTTAAATCACAGACAAATCAG
1 TCATTTACATCACAGACAAATCAA
*
31411371 TCATTTACATCACGGACAAATCAA
1 TCATTTACATCACAGACAAATCAA
31411395 TCATTTACA
1 TCATTTACA
31411404 CTCGAGGGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (24 bp):
TCATTTACATCACAGACAAATCAA
Found at i:31411465 original size:27 final size:27
Alignment explanation
Indices: 31411420--31411535 Score: 110
Period size: 27 Copynumber: 4.4 Consensus size: 27
31411410 GGGTAAAATA
* *
31411420 GTCA-TTTACCCTCTAGGGGCATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* * **
31411446 GTCATTTTACCCTATGGGGGTTTTTTG
1 GTCATTTTACCCTATAGGGGTATTACG
* * * *
31411473 ATCGTTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* *
31411500 GTCAATTTACCCTATA-GGGTATTAAG
1 GTCATTTTACCCTATAGGGGTATTACG
31411526 GTCATTTTAC
1 GTCATTTTAC
31411536 AAATATTAGG
Statistics
Matches: 68, Mismatches: 21, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
26 22 0.32
27 46 0.68
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTACG
Found at i:31412828 original size:47 final size:47
Alignment explanation
Indices: 31412776--31412876 Score: 186
Period size: 47 Copynumber: 2.2 Consensus size: 47
31412766 AAGGCGGAGA
*
31412776 AAGAAAAGTTGAATTCTGCTCACATTAAGAAAAAATAGGAAATAGGG
1 AAGAAAAGTTGAATTCAGCTCACATTAAGAAAAAATAGGAAATAGGG
31412823 AAGAAAAGTTGAATTCAGCTCACATTAAGAAAAAATAGGAAATAGGG
1 AAGAAAAGTTGAATTCAGCTCACATTAAGAAAAAATAGGAAATAGGG
31412870 -AGAAAAG
1 AAGAAAAG
31412877 AATAAAGAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 7 0.13
47 46 0.87
ACGTcount: A:0.51, C:0.08, G:0.22, T:0.19
Consensus pattern (47 bp):
AAGAAAAGTTGAATTCAGCTCACATTAAGAAAAAATAGGAAATAGGG
Found at i:31426321 original size:25 final size:25
Alignment explanation
Indices: 31426293--31426371 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
31426283 CTAATGGCCG
31426293 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
31426318 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
31426340 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
31426365 ATGTGAT
1 ATGTGAT
31426372 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:31426343 original size:47 final size:47
Alignment explanation
Indices: 31426277--31426893 Score: 1009
Period size: 47 Copynumber: 13.1 Consensus size: 47
31426267 GAAATGATAG
31426277 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31426324 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
31426371 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
31426420 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
31426467 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
31426514 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
31426561 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
31426608 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
31426655 TAAGGCCTAATCGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
31426702 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
31426749 TAAGGCCTAATGGCTGATGTGATGAATGTGAAAATGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31426796 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
31426843 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
31426890 TAAG
1 TAAG
31426894 TCCCGAAGGG
Statistics
Matches: 542, Mismatches: 26, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
47 496 0.92
49 46 0.08
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:31427068 original size:37 final size:37
Alignment explanation
Indices: 31427012--31427090 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
31427002 CCGAGCTCTA
* *
31427012 AAGACCCGATGACTACGTGT-GAGAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
31427049 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
31427086 AAGAC
1 AAGAC
31427091 TTCATAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 35 0.92
38 3 0.08
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:31432560 original size:13 final size:13
Alignment explanation
Indices: 31432523--31432568 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
31432513 TCATATAATT
*
31432523 ATTTCCATATAACC
1 ATTT-CATATAGCC
*
31432537 AATTCATATAGCC
1 ATTTCATATAGCC
31432550 ATTTCATATAGCC
1 ATTTCATATAGCC
31432563 ATTTCA
1 ATTTCA
31432569 AAGTGTTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 26 0.90
14 3 0.10
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (13 bp):
ATTTCATATAGCC
Found at i:31447712 original size:50 final size:50
Alignment explanation
Indices: 31447637--31447829 Score: 210
Period size: 50 Copynumber: 3.7 Consensus size: 50
31447627 TTTTCTGTAC
* * **
31447637 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
31447687 TGCCCATGTCATGTCCCAGACATGGTCTTAC-GGGGAACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGG-ACCTCTCATATCGG
* *
31447737 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
31447793 TGCCAATGCCATG-CCCTAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCC-AGACATGGTCTTACATGGGA
31447830 TCTCATTCCC
Statistics
Matches: 119, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
49 3 0.03
50 75 0.63
51 3 0.03
53 2 0.02
55 3 0.03
56 33 0.28
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:31451942 original size:40 final size:40
Alignment explanation
Indices: 31451882--31452038 Score: 215
Period size: 40 Copynumber: 3.9 Consensus size: 40
31451872 TGCATTCAAA
* *
31451882 GTACTGAAGTACAACCAGGGGCACGTATGTGCATTCAGGG
1 GTACCGAAGTACAAACAGGGGCACGTATGTGCATTCAGGG
* * *
31451922 GTACCGAAGTACAAATAGGGGCACGTATGTGCATTTAAGG
1 GTACCGAAGTACAAACAGGGGCACGTATGTGCATTCAGGG
* * *
31451962 GTACCAAAGTACAAACAGGGGCGCGTATGTGCATTTAGGG
1 GTACCGAAGTACAAACAGGGGCACGTATGTGCATTCAGGG
* * *
31452002 GAATCGAAGTACAAACAAGGGCACGTATGTGCATTCA
1 GTACCGAAGTACAAACAGGGGCACGTATGTGCATTCA
31452039 TACAATAATT
Statistics
Matches: 102, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (40 bp):
GTACCGAAGTACAAACAGGGGCACGTATGTGCATTCAGGG
Found at i:31455766 original size:16 final size:16
Alignment explanation
Indices: 31455745--31455818 Score: 51
Period size: 16 Copynumber: 4.4 Consensus size: 16
31455735 TTTTTACAAA
31455745 ATGAATATGAGTCCTT
1 ATGAATATGAGTCCTT
* * **
31455761 ATGAATGGTCAG-CCAAA
1 ATGAAT-ATGAGTCC-TT
*
31455778 ATAAATATGAGTCCTCAT
1 ATGAATATGAGTCCT--T
31455796 AATGAATATGAGTCCTT
1 -ATGAATATGAGTCCTT
31455813 ATGAAT
1 ATGAAT
31455819 GCATTCGTGG
Statistics
Matches: 42, Mismatches: 10, Indels: 12
0.66 0.16 0.19
Matches are distributed among these distances:
16 17 0.40
17 11 0.26
19 14 0.33
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (16 bp):
ATGAATATGAGTCCTT
Found at i:31461262 original size:28 final size:27
Alignment explanation
Indices: 31461199--31461378 Score: 288
Period size: 28 Copynumber: 6.6 Consensus size: 27
31461189 ATATTAAGTC
* * *
31461199 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
31461226 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
31461254 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
31461281 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
31461309 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
31461337 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
31461364 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31461379 GCACAATTTA
Statistics
Matches: 147, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
27 66 0.45
28 81 0.55
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:31461283 original size:55 final size:55
Alignment explanation
Indices: 31461199--31461378 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
31461189 ATATTAAGTC
* * * *
31461199 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
31461254 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
31461309 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAACT
31461364 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31461379 GCACAATTTA
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 92 0.77
56 27 0.23
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:31461319 original size:83 final size:82
Alignment explanation
Indices: 31461199--31461378 Score: 306
Period size: 83 Copynumber: 2.2 Consensus size: 82
31461189 ATATTAAGTC
* *
31461199 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
31461264 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
* *
31461281 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
*
31461346 AGTGCTACATAGTCAATT
65 AGTGCTACATAGTCAACT
31461364 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31461379 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 20 0.22
83 72 0.78
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:31469566 original size:40 final size:39
Alignment explanation
Indices: 31469469--31469775 Score: 296
Period size: 40 Copynumber: 7.8 Consensus size: 39
31469459 GAGTTATCGG
* * **
31469469 AGTATAAACAGGGGCAC-TAAAGTGCATTCAAAGTACCG-
1 AGTACAAACAGGGGCACGT-ATGTGCATTCAGGGTACCGA
* ** *
31469507 AGTACAACCAGGGGCACGTATGTGCATTCAGGGATGTCAA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGG-TACCGA
* * *
31469547 AGTACAAATAGGGGTACGTATGTGCCTTCATGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCA-GGGTACCGA
* * *
31469587 AGTACAAACATGGGCATGTATGTGCATTCAAGGGTATCGA
1 AGTACAAACAGGGGCACGTATGTGCATTC-AGGGTACCGA
* *
31469627 AGTACAAACA-GGGCATGTATGTGCATTTAGGGATACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGG-TACCGA
* * * *
31469666 GGCAGAAACAGGGGCACTTATGTGCATTCAGGTGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGG-GTACCGA
* * * *
31469706 AGTACAAATAAGGGCACGCATGTGCATTTACGGGTACCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCA-GGGTACCGA
* *
31469746 AGTACAAATAGGGGCACGCATGTGCATTCA
1 AGTACAAACAGGGGCACGTATGTGCATTCA
31469776 TACAATAATT
Statistics
Matches: 221, Mismatches: 39, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
38 30 0.14
39 32 0.14
40 152 0.69
41 7 0.03
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.21
Consensus pattern (39 bp):
AGTACAAACAGGGGCACGTATGTGCATTCAGGGTACCGA
Found at i:31469688 original size:119 final size:120
Alignment explanation
Indices: 31469490--31469775 Score: 328
Period size: 119 Copynumber: 2.4 Consensus size: 120
31469480 GGGCACTAAA
* * ** *
31469490 GTGCATTCAA-AGTACCG-AGTACAACCAGGGGCACGTATGTGCATTCAGGGATGTCAAAGTACA
1 GTGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTCAGGGATACCAAAGCACA
* * * * * *
31469553 AATAGGGGTACGTATGTGCCTTCATGG-GTACCGAAGTACAAACATGGGCATGTAT
66 AACAGGGGCACGTATGTGCATTCA-GGTGTACCGAAGTACAAACAAGGGCACGCAT
* * * * * *
31469608 GTGCATTCAAGGGTATCGAAGTACAAACA-GGGCATGTATGTGCATTTAGGGATACCGAGGCAGA
1 GTGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTCAGGGATACCAAAGCACA
* *
31469672 AACAGGGGCACTTATGTGCATTCAGGTGTACCGAAGTACAAATAAGGGCACGCAT
66 AACAGGGGCACGTATGTGCATTCAGGTGTACCGAAGTACAAACAAGGGCACGCAT
* * * *
31469727 GTGCATTTACGGGTACCGAAGTACAAATAGGGGCACGCATGTGCATTCA
1 GTGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTCA
31469776 TACAATAATT
Statistics
Matches: 138, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
118 12 0.09
119 101 0.73
120 25 0.18
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.22
Consensus pattern (120 bp):
GTGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATGTGCATTCAGGGATACCAAAGCACA
AACAGGGGCACGTATGTGCATTCAGGTGTACCGAAGTACAAACAAGGGCACGCAT
Found at i:31474419 original size:21 final size:22
Alignment explanation
Indices: 31474395--31474435 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
31474385 TGTTATTTAT
*
31474395 TTAATAAAATA-AAATAAAAGG
1 TTAATAAAATACAAAAAAAAGG
31474416 TTAATAAAATACAAAAAAAA
1 TTAATAAAATACAAAAAAAA
31474436 AACAAAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (22 bp):
TTAATAAAATACAAAAAAAAGG
Found at i:31476628 original size:35 final size:35
Alignment explanation
Indices: 31476582--31476657 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 35
31476572 AAAATTGGTG
31476582 TATGT-TC-TTAAATGACCAAAATTGGTAT-G-TGT
1 TATGTATCTTTAAATGACCAAAA-TGGTATGGTTGT
*
31476614 TAATGTATCTTTAAATGGCCAAAATGGTATGGTTGT
1 T-ATGTATCTTTAAATGACCAAAATGGTATGGTTGT
31476650 TATGTATC
1 TATGTATC
31476658 AATTATGTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
32 1 0.03
33 4 0.11
34 8 0.21
35 21 0.55
36 4 0.11
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (35 bp):
TATGTATCTTTAAATGACCAAAATGGTATGGTTGT
Found at i:31480433 original size:11 final size:11
Alignment explanation
Indices: 31480417--31480441 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
31480407 GGAAGAGGAC
31480417 TTATGAAGTAA
1 TTATGAAGTAA
31480428 TTATGAAGTAA
1 TTATGAAGTAA
31480439 TTA
1 TTA
31480442 GTCCATAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (11 bp):
TTATGAAGTAA
Found at i:31483300 original size:25 final size:22
Alignment explanation
Indices: 31483266--31483443 Score: 83
Period size: 23 Copynumber: 7.7 Consensus size: 22
31483256 TGTTCAAGTG
31483266 TATATTGGTTGTGTTAGGAGGTTA
1 TATATTGGTTGTGTTAGGAGG--A
*
31483290 TATATATGGTTGTGTTTGGAGGA
1 TATAT-TGGTTGTGTTAGGAGGA
* * * *
31483313 TACATTTGGTTGTGTTCGAAGGG
1 TATA-TTGGTTGTGTTAGGAGGA
* * * * * * *
31483336 TAAAATAGTTTTTTTCA-AAGGG
1 TATATTGGTTGTGTT-AGGAGGA
* *
31483358 TA-ACTTGGCTGTGTTTGGAAGG-
1 TATA-TTGGTTGTGTTAGG-AGGA
31483380 TATACTTGGTTGTGTTAGGAGGTTA
1 TATA-TTGGTTGTGTTAGGAGG--A
*
31483405 TATATATGGTTGTGTTAGGAGGG
1 TATAT-TGGTTGTGTTAGGAGGA
*
31483428 TACATTTGGTTGTGTT
1 TATA-TTGGTTGTGTT
31483444 CGAAGGGTAA
Statistics
Matches: 120, Mismatches: 22, Indels: 25
0.72 0.13 0.15
Matches are distributed among these distances:
21 1 0.01
22 25 0.21
23 51 0.43
24 8 0.07
25 35 0.29
ACGTcount: A:0.21, C:0.04, G:0.32, T:0.43
Consensus pattern (22 bp):
TATATTGGTTGTGTTAGGAGGA
Found at i:31483450 original size:23 final size:22
Alignment explanation
Indices: 31483296--31483486 Score: 89
Period size: 23 Copynumber: 8.5 Consensus size: 22
31483286 GTTATATATA
* * *
31483296 TGGTTGTGTTTGGAGGATACATT
1 TGGTTGTGTTCGAAGGGTA-ATT
**
31483319 TGGTTGTGTTCGAAGGGTAAAA
1 TGGTTGTGTTCGAAGGGTAATT
* * * * *
31483341 TAGTTTTTTTCAAAGGGTAACT
1 TGGTTGTGTTCGAAGGGTAATT
* * *
31483363 TGGCTGTGTTTGGAA-GGTATACT
1 TGGTTGTG-TTCGAAGGGTA-ATT
* * *
31483386 TGGTTGTGTTAGGAGGTTATATAT
1 TGGTTGTGTTCGAAGGGTA-AT-T
* *
31483410 ATGGTTGTGTTAGGAGGGTACATT
1 -TGGTTGTGTTCGAAGGGTA-ATT
**
31483434 TGGTTGTGTTCGAAGGGTAAAA
1 TGGTTGTGTTCGAAGGGTAATT
** * *
31483456 TACTTGT-TTCAAAGGGTAACT
1 TGGTTGTGTTCGAAGGGTAATT
31483477 TGGTTGTGTT
1 TGGTTGTGTT
31483487 TAGAGGCTAT
Statistics
Matches: 127, Mismatches: 35, Indels: 13
0.73 0.20 0.07
Matches are distributed among these distances:
21 16 0.13
22 37 0.29
23 52 0.41
24 2 0.02
25 20 0.16
ACGTcount: A:0.22, C:0.06, G:0.32, T:0.40
Consensus pattern (22 bp):
TGGTTGTGTTCGAAGGGTAATT
Found at i:31490381 original size:8 final size:7
Alignment explanation
Indices: 31490354--31490379 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
31490344 CTTGATTAGA
31490354 TTTTTAT
1 TTTTTAT
31490361 TTTTTAT
1 TTTTTAT
31490368 TTTTTAT
1 TTTTTAT
31490375 TTTTT
1 TTTTT
31490380 TACTTTCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:31491079 original size:21 final size:21
Alignment explanation
Indices: 31491054--31491111 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
31491044 ATGTAACTCG
31491054 ATCACACGGGTGTGTGTCTCC
1 ATCACACGGGTGTGTGTCTCC
* **
31491075 TTCACACGGGCATGTGTCTCC
1 ATCACACGGGTGTGTGTCTCC
*
31491096 ACCACACGGGTGTGTG
1 ATCACACGGGTGTGTG
31491112 GGCCTCCACA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (21 bp):
ATCACACGGGTGTGTGTCTCC
Found at i:31494664 original size:27 final size:27
Alignment explanation
Indices: 31494631--31494837 Score: 315
Period size: 27 Copynumber: 7.6 Consensus size: 27
31494621 TAAATTGTGC
*
31494631 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
31494658 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
31494686 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
31494713 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
31494741 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31494768 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
31494796 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31494823 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31494838 GACTTAATAT
Statistics
Matches: 168, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
27 91 0.54
28 77 0.46
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Done.