Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 75 of 168
Found at i:22031406 original size:16 final size:16
Alignment explanation
Indices: 22031385--22031416 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22031375 TCAATACAAG
22031385 TATATTCACAAACATA
1 TATATTCACAAACATA
*
22031401 TATATTCACATACATA
1 TATATTCACAAACATA
22031417 CCAAAACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (16 bp):
TATATTCACAAACATA
Found at i:22031731 original size:50 final size:50
Alignment explanation
Indices: 22031585--22031733 Score: 199
Period size: 50 Copynumber: 3.0 Consensus size: 50
22031575 TAAATTGACT
* * * *
22031585 AGCCACCATCGATTTACAAATAAATTGCCACTGAAAACACTTTGTGCACA
1 AGCCACCACCAATTTACAAATAAATTGCCACTGATAACACTTTGTGGACA
** * * *
22031635 AGCCACCACTGATTTACAGATAAACTACCACTGATAACACTTTGTGGACA
1 AGCCACCACCAATTTACAAATAAATTGCCACTGATAACACTTTGTGGACA
* *
22031685 AGCTACCACCAATTTGCAAATAAATTGCCACTGATAACACTTTGTGGAC
1 AGCCACCACCAATTTACAAATAAATTGCCACTGATAACACTTTGTGGAC
22031734 TACCCACAAT
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 85 1.00
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (50 bp):
AGCCACCACCAATTTACAAATAAATTGCCACTGATAACACTTTGTGGACA
Found at i:22031754 original size:50 final size:48
Alignment explanation
Indices: 22031601--22031756 Score: 131
Period size: 50 Copynumber: 3.1 Consensus size: 48
22031591 CATCGATTTA
* * *
22031601 CAAATAAATTGCCACTGAAAACACTTTGTGCACAAGCCACCACTGATT-TA-
1 CAAATAAATTGCCACTGATAACACTTTGTGGACAA--C-CCAC-AATTGTAG
* * *
22031651 CAGATAAACTACCACTGATAACACTTTGTGGACAAGCTACCACCAATT-T-G
1 CAAATAAATTGCCACTGATAACACTTTGTGGACAA-C--CCA-CAATTGTAG
*
22031701 CAAATAAATTGCCACTGATAACACTTTGTGGACTACCCACAATTGCTAAG
1 CAAATAAATTGCCACTGATAACACTTTGTGGACAACCCACAATTG-T-AG
22031751 CAAATA
1 CAAATA
22031757 TACTACCGCA
Statistics
Matches: 88, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
46 5 0.06
47 3 0.03
48 1 0.01
49 2 0.02
50 76 0.86
51 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (48 bp):
CAAATAAATTGCCACTGATAACACTTTGTGGACAACCCACAATTGTAG
Found at i:22036319 original size:25 final size:25
Alignment explanation
Indices: 22036253--22036322 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
22036243 ACAAACACAC
* * *
22036253 CACAACTCTTATGAGCTTACCGATT
1 CACAGCTCGTATGAGCATACCGATT
*
22036278 CACAGCTCGTGA-AAGCATACCGATT
1 CACAGCTCGT-ATGAGCATACCGATT
* *
22036303 CATAGCTTGTATGAGCATAC
1 CACAGCTCGTATGAGCATAC
22036323 ATGTACAAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
24 1 0.03
25 34 0.94
26 1 0.03
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (25 bp):
CACAGCTCGTATGAGCATACCGATT
Found at i:22043294 original size:21 final size:21
Alignment explanation
Indices: 22043270--22043316 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
22043260 CATATACACA
22043270 AATTTGTAAT-AAAAACTATAG
1 AATTTGTAATCAAAAACT-TAG
* *
22043291 AATTTGTTATCAAACACTTAG
1 AATTTGTAATCAAAAACTTAG
22043312 AATTT
1 AATTT
22043317 ACATAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.38
Consensus pattern (21 bp):
AATTTGTAATCAAAAACTTAG
Found at i:22043626 original size:5 final size:5
Alignment explanation
Indices: 22043618--22043675 Score: 73
Period size: 5 Copynumber: 11.2 Consensus size: 5
22043608 GGGTTAAGGT
22043618 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTCC TTTTTC TTTT- TTGTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT-C -TTTTC TTTTC TT-TTC
*
22043665 TTTTC ATTTC T
1 TTTTC TTTTC T
22043676 AGTTTTGGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
4 2 0.04
5 37 0.79
6 4 0.09
7 4 0.09
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTC
Found at i:22043658 original size:27 final size:27
Alignment explanation
Indices: 22043623--22043674 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
22043613 AAGGTTTTTC
*
22043623 TTTTCTTTTCTT-TTCTTTTCTTTTCCT
1 TTTTCTTTT-TTGTTCTTTTCATTTCCT
22043650 TTTTCTTTTTTGTTCTTTTCATTTC
1 TTTTCTTTTTTGTTCTTTTCATTTC
22043675 TAGTTTTGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (27 bp):
TTTTCTTTTTTGTTCTTTTCATTTCCT
Found at i:22052742 original size:20 final size:18
Alignment explanation
Indices: 22052708--22052744 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
22052698 ATATAATTGT
22052708 AATTTTTCTAGAAAATAG
1 AATTTTTCTAGAAAATAG
22052726 AATTTATTCTAAGAAAATA
1 AATTT-TTCT-AGAAAATA
22052745 AGTTCTCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (18 bp):
AATTTTTCTAGAAAATAG
Found at i:22058443 original size:21 final size:22
Alignment explanation
Indices: 22058419--22058462 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
22058409 AGAACAGACG
22058419 TTAGTGTAAAAAAAA-TTAACT
1 TTAGTGTAAAAAAAATTTAACT
22058440 TTAGTGTAAAAAAAATTTAACT
1 TTAGTGTAAAAAAAATTTAACT
22058462 T
1 T
22058463 ATTTTAAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (22 bp):
TTAGTGTAAAAAAAATTTAACT
Found at i:22058776 original size:13 final size:13
Alignment explanation
Indices: 22058758--22058805 Score: 71
Period size: 13 Copynumber: 3.7 Consensus size: 13
22058748 CTCAAATTTT
22058758 TCAAAAGCA-TCTC
1 TCAAAAGCACT-TC
22058771 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
22058784 TCAAAAGCACTTT
1 TCAAAAGCACTTC
22058797 TCAAAAGCA
1 TCAAAAGCA
22058806 TTGCCAAACT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
13 32 0.97
14 1 0.03
ACGTcount: A:0.42, C:0.27, G:0.08, T:0.23
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:22059213 original size:7 final size:7
Alignment explanation
Indices: 22059204--22059280 Score: 68
Period size: 7 Copynumber: 11.0 Consensus size: 7
22059194 TTCTTTTTAA
*
22059204 CTCAATA
1 CTCAATT
22059211 CTCAA-T
1 CTCAATT
22059217 CGTCAA-T
1 C-TCAATT
*
22059224 CTTAAATT
1 CTCAA-TT
22059232 CTCAATT
1 CTCAATT
*
22059239 CTCAATC
1 CTCAATT
*
22059246 CTCAATC
1 CTCAATT
22059253 CTCAATT
1 CTCAATT
*
22059260 CTCAAAT
1 CTCAATT
*
22059267 CCCAATT
1 CTCAATT
22059274 CTCAATT
1 CTCAATT
22059281 ATTATTTTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
6 4 0.07
7 49 0.84
8 5 0.09
ACGTcount: A:0.32, C:0.31, G:0.01, T:0.35
Consensus pattern (7 bp):
CTCAATT
Found at i:22061387 original size:21 final size:21
Alignment explanation
Indices: 22061361--22061400 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
22061351 CATTCGAAAT
22061361 TGATTGCAAGAGTGATAAGGA
1 TGATTGCAAGAGTGATAAGGA
22061382 TGATTGCAAGAGTGATAAG
1 TGATTGCAAGAGTGATAAG
22061401 CTTGATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.33, T:0.25
Consensus pattern (21 bp):
TGATTGCAAGAGTGATAAGGA
Found at i:22061406 original size:21 final size:21
Alignment explanation
Indices: 22061360--22061407 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
22061350 ACATTCGAAA
*
22061360 TTGATTGCAAGAGTGATAAGG
1 TTGATTGCAAGAGTGATAAGC
*
22061381 ATGATTGCAAGAGTGATAAGC
1 TTGATTGCAAGAGTGATAAGC
22061402 TTGATT
1 TTGATT
22061408 ATGTAACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGATTGCAAGAGTGATAAGC
Found at i:22067471 original size:18 final size:18
Alignment explanation
Indices: 22067450--22067485 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
22067440 GAATTTGAAA
22067450 TTCTTAAAATATTTTTAG
1 TTCTTAAAATATTTTTAG
22067468 TTCTTAAAATATTTTTAG
1 TTCTTAAAATATTTTTAG
22067486 ATTTAACAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (18 bp):
TTCTTAAAATATTTTTAG
Found at i:22067491 original size:17 final size:18
Alignment explanation
Indices: 22067451--22067491 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
22067441 AATTTGAAAT
*
22067451 TCTTAAAATATTTTTAGT
1 TCTTAAAATATTTTTAGA
22067469 TCTTAAAATATTTTTAGA
1 TCTTAAAATATTTTTAGA
22067487 T-TTAA
1 TCTTAA
22067492 CAACTCTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.54
Consensus pattern (18 bp):
TCTTAAAATATTTTTAGA
Found at i:22074766 original size:20 final size:20
Alignment explanation
Indices: 22074743--22074784 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
22074733 ATTTAAATCT
*
22074743 ATAAAATTTA-AATTAAATTA
1 ATAAAATCTATAA-TAAATTA
*
22074763 ATAATATCTATAATAAATTA
1 ATAAAATCTATAATAAATTA
22074783 AT
1 AT
22074785 TTAATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAAAATCTATAATAAATTA
Found at i:22075588 original size:24 final size:24
Alignment explanation
Indices: 22075567--22075622 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
22075557 AAGATTTAGT
22075567 ATTTATTAGCATAATATATTTAAC
1 ATTTATTAGCATAATATATTTAAC
*
22075591 ATTTATTAGCATAATATATTTGAC
1 ATTTATTAGCATAATATATTTAAC
*
22075615 ATTGATTA
1 ATTTATTA
22075623 ATTAGGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (24 bp):
ATTTATTAGCATAATATATTTAAC
Found at i:22083094 original size:24 final size:24
Alignment explanation
Indices: 22083066--22083117 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
22083056 TTTCTAGAAA
* *
22083066 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
22083090 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
22083114 ATTT
1 ATTT
22083118 GACGTTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:22083474 original size:5 final size:5
Alignment explanation
Indices: 22083466--22083503 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
22083456 AATATATCAT
*
22083466 ATATG ATATG ATATG ATATT ATATG ATATG ATATG ATA
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATA
22083504 GCATAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (5 bp):
ATATG
Found at i:22083490 original size:20 final size:20
Alignment explanation
Indices: 22083465--22083503 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
22083455 TAATATATCA
22083465 TATATGATATGATATGATAT
1 TATATGATATGATATGATAT
22083485 TATATGATATGATATGATA
1 TATATGATATGATATGATA
22083504 GCATAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (20 bp):
TATATGATATGATATGATAT
Found at i:22084831 original size:25 final size:25
Alignment explanation
Indices: 22084803--22084869 Score: 84
Period size: 25 Copynumber: 2.6 Consensus size: 25
22084793 TTACATACAA
22084803 TAAGCTAGTGTTAGCAACAT-CAAAT
1 TAAGCTAGTGTTAGCAA-ATCCAAAT
*
22084828 TAAGCTAGTGTTAGC-AATCCTAAT
1 TAAGCTAGTGTTAGCAAATCCAAAT
22084852 TCAAAGCTAGTGTTAGCA
1 T--AAGCTAGTGTTAGCA
22084870 GCCCAATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
23 2 0.05
24 6 0.16
25 15 0.41
26 14 0.38
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (25 bp):
TAAGCTAGTGTTAGCAAATCCAAAT
Found at i:22089287 original size:16 final size:16
Alignment explanation
Indices: 22089266--22089301 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
22089256 GGGCTGAACG
22089266 GGGCGCACGAGCGTGT
1 GGGCGCACGAGCGTGT
22089282 GGGCGCACGAGCGTGT
1 GGGCGCACGAGCGTGT
22089298 GGGC
1 GGGC
22089302 CCACTTGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.11, C:0.25, G:0.53, T:0.11
Consensus pattern (16 bp):
GGGCGCACGAGCGTGT
Found at i:22089456 original size:27 final size:27
Alignment explanation
Indices: 22089425--22089543 Score: 134
Period size: 27 Copynumber: 4.4 Consensus size: 27
22089415 ACCCTAAAAT
*
22089425 AGGTAAAATGACCAAAATACCCTCATA
1 AGGTAAAATGACCGAAATACCCTCATA
* *
22089452 AGGTAAAATGACTGAAATACCCCCATA
1 AGGTAAAATGACCGAAATACCCTCATA
* * *
22089479 GGGTAAAATGACCGCAATACCCTTATA
1 AGGTAAAATGACCGAAATACCCTCATA
**
22089506 AGGTAAAATGATTGAAATACCC-C-TA
1 AGGTAAAATGACCGAAATACCCTCATA
22089531 CAGGGTAAAATGA
1 -A-GGTAAAATGA
22089544 TTGTTATACC
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
25 2 0.03
26 1 0.01
27 74 0.96
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.20
Consensus pattern (27 bp):
AGGTAAAATGACCGAAATACCCTCATA
Found at i:22089554 original size:54 final size:54
Alignment explanation
Indices: 22089426--22089543 Score: 182
Period size: 54 Copynumber: 2.2 Consensus size: 54
22089416 CCCTAAAATA
** *
22089426 GGTAAAATGACCAAAATACCCTCATAAGGTAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGACCGCAATACCCTCATAAGGTAAAATGACTGAAATACCCCCACAG
* * *
22089480 GGTAAAATGACCGCAATACCCTTATAAGGTAAAATGATTGAAATACCCCTACAG
1 GGTAAAATGACCGCAATACCCTCATAAGGTAAAATGACTGAAATACCCCCACAG
22089534 GGTAAAATGA
1 GGTAAAATGA
22089544 TTGTTATACC
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.20
Consensus pattern (54 bp):
GGTAAAATGACCGCAATACCCTCATAAGGTAAAATGACTGAAATACCCCCACAG
Found at i:22089569 original size:54 final size:54
Alignment explanation
Indices: 22089426--22089573 Score: 136
Period size: 54 Copynumber: 2.7 Consensus size: 54
22089416 CCCTAAAATA
** * * *
22089426 GGTAAAATGACCAAAATACCC-TCATAAGGTAAAATGACTGAAATACCCCCATAG
1 GGTAAAATGACCGCAATACCCAT-AGAAGATAAAATGACTGAAATACCCCCACAG
* * * * *
22089480 GGTAAAATGACCGCAATACCCTTATAAGGTAAAATGATTGAAATACCCCTACAG
1 GGTAAAATGACCGCAATACCCATAGAAGATAAAATGACTGAAATACCCCCACAG
** ** * *
22089534 GGTAAAATGATTGTTATACCCATAGGAGATGAAATGACTG
1 GGTAAAATGACCGCAATACCCATAGAAGATAAAATGACTG
22089574 TTATGGCCTT
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
54 77 0.99
55 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.22
Consensus pattern (54 bp):
GGTAAAATGACCGCAATACCCATAGAAGATAAAATGACTGAAATACCCCCACAG
Found at i:22093498 original size:15 final size:16
Alignment explanation
Indices: 22093480--22093527 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 16
22093470 AAAAATTTAA
22093480 AAATT-TAAAAAATAT
1 AAATTATAAAAAATAT
* *
22093495 AAATTATTAAAATTA-
1 AAATTATAAAAAATAT
22093510 AAATTATAAAAAA-AT
1 AAATTATAAAAAATAT
22093525 AAA
1 AAA
22093528 AATAAAAACC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 1 0.04
15 19 0.70
16 7 0.26
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATTATAAAAAATAT
Found at i:22096155 original size:32 final size:33
Alignment explanation
Indices: 22096117--22096188 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
22096107 AAAATTTATG
*
22096117 AAATATTTT-TAGAAAATC-TGCCAAACAAC-AGA
1 AAATATTTTATACAAAATCAT-CCAAAC-ACTAGA
*
22096149 AAATATTTTATACAAATTCATCCAAACACTAGA
1 AAATATTTTATACAAAATCATCCAAACACTAGA
22096182 AAATATT
1 AAATATT
22096189 AGCTTTTCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 11 0.31
33 23 0.66
34 1 0.03
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (33 bp):
AAATATTTTATACAAAATCATCCAAACACTAGA
Found at i:22099637 original size:3 final size:3
Alignment explanation
Indices: 22099591--22099624 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
22099581 TTATATTAGT
*
22099591 ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
22099625 ACTTAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:22101443 original size:2 final size:2
Alignment explanation
Indices: 22101436--22101470 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
22101426 AAGTTTAGTT
22101436 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22101471 GAGATAATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22104511 original size:31 final size:32
Alignment explanation
Indices: 22104450--22104511 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
22104440 TCTTCATTTT
* **
22104450 TTTGAAAATTTTCATTAAACTCACTTAAAATA
1 TTTGAAAATTCTCATTAAACTCACAAAAAATA
*
22104482 TTTGAAAA-TCTCATTAATCTCACAAAAAAT
1 TTTGAAAATTCTCATTAAACTCACAAAAAAT
22104512 TAAAAAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 18 0.69
32 8 0.31
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (32 bp):
TTTGAAAATTCTCATTAAACTCACAAAAAATA
Found at i:22113042 original size:23 final size:23
Alignment explanation
Indices: 22113002--22113045 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
22112992 CCTCTACACA
*
22113002 CCATCTCCATTCGACCCTACATG
1 CCATCTCCATCCGACCCTACATG
* *
22113025 CCATCTCCGTCCGGCCCTACA
1 CCATCTCCATCCGACCCTACA
22113046 CATAATCAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.18, C:0.48, G:0.11, T:0.23
Consensus pattern (23 bp):
CCATCTCCATCCGACCCTACATG
Found at i:22115037 original size:21 final size:22
Alignment explanation
Indices: 22114990--22115034 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
22114980 AATGTTATTA
*
22114990 TAATATATGTTTTTTAAGATAT
1 TAATATATGTTTATTAAGATAT
22115012 TAATATATG-TTATTAAGAT-T
1 TAATATATGTTTATTAAGATAT
22115032 TAA
1 TAA
22115035 ATAGATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.18
21 9 0.41
22 9 0.41
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TAATATATGTTTATTAAGATAT
Found at i:22124228 original size:126 final size:126
Alignment explanation
Indices: 22124003--22124286 Score: 478
Period size: 126 Copynumber: 2.3 Consensus size: 126
22123993 TAATTTAAAG
* ** * *
22124003 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTGGCTTTTGAGAAAATAATTTCGAGTAGAGGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
22124068 CTGAGCAAACAGTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
66 CTGAGCAAACAGTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
* * *
22124129 AAGCTTCTACGTGGACGCGCTTTTGCTATAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
* *
22124194 CTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAG
66 CTGAGCAAACAGTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
22124255 AAGCTCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGT
22124287 GGCGCATGGC
Statistics
Matches: 145, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 145 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
CTGAGCAAACAGTGTCAAAAACACTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
Found at i:22127982 original size:41 final size:41
Alignment explanation
Indices: 22127925--22128049 Score: 166
Period size: 41 Copynumber: 3.0 Consensus size: 41
22127915 TTAAAGTGAT
*
22127925 TGAAATAATTCAGACTTTACGTCTAGCAGGCTTGATGCCGG
1 TGAAATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGG
22127966 TGAAATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGG
1 TGAAATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGG
* * *
22128007 TG--ATACATATCGGACTATATGTCTAGCAGGC-TAAGTGCCGG
1 TGAAATA-AT-TCAGACTTTACGTCTAGCAGGCTTAA-TGCCGG
22128048 TG
1 TG
22128050 TATTGAATCA
Statistics
Matches: 77, Mismatches: 4, Indels: 6
0.89 0.05 0.07
Matches are distributed among these distances:
39 3 0.04
40 5 0.06
41 69 0.90
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (41 bp):
TGAAATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGG
Found at i:22130433 original size:18 final size:18
Alignment explanation
Indices: 22130407--22130449 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
22130397 AACTAGAAAA
* * *
22130407 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
22130425 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
22130443 AGGATAC
1 AGGATAC
22130450 GCATCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:22132309 original size:22 final size:22
Alignment explanation
Indices: 22132284--22132372 Score: 70
Period size: 22 Copynumber: 3.7 Consensus size: 22
22132274 TCTTTTAAAT
*
22132284 AGGAATTTGAGAGAAATTTGAA
1 AGGAAATTGAGAGAAATTTGAA
*
22132306 AGGAAATTGAGAGCAAATTGAGATTCAA
1 AGGAAATTGAGAG-AAA-T----TTGAA
* * *
22132334 TAGGGATTTGAGAGAAATTTGAG
1 -AGGAAATTGAGAGAAATTTGAA
22132357 AGGAAATTGAGAGAAA
1 AGGAAATTGAGAGAAA
22132373 ATTAGAGAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
22 26 0.50
23 6 0.12
24 1 0.02
27 1 0.02
28 7 0.13
29 11 0.21
ACGTcount: A:0.45, C:0.02, G:0.29, T:0.24
Consensus pattern (22 bp):
AGGAAATTGAGAGAAATTTGAA
Found at i:22132343 original size:51 final size:52
Alignment explanation
Indices: 22132281--22132380 Score: 166
Period size: 51 Copynumber: 1.9 Consensus size: 52
22132271 AGCTCTTTTA
*
22132281 AATAGGAATTTGAGAGAAATTTGAAAGGAAATTGAGAGCAAATT-GAGATTC
1 AATAGGAATTTGAGAGAAATTTGAAAGGAAATTGAGAGAAAATTAGAGATTC
* *
22132332 AATAGGGATTTGAGAGAAATTTGAGAGGAAATTGAGAGAAAATTAGAGA
1 AATAGGAATTTGAGAGAAATTTGAAAGGAAATTGAGAGAAAATTAGAGA
22132381 AAGAATTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 41 0.91
52 4 0.09
ACGTcount: A:0.46, C:0.02, G:0.28, T:0.24
Consensus pattern (52 bp):
AATAGGAATTTGAGAGAAATTTGAAAGGAAATTGAGAGAAAATTAGAGATTC
Found at i:22132379 original size:10 final size:11
Alignment explanation
Indices: 22132341--22132382 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
22132331 CAATAGGGAT
*
22132341 TTGAGAGAAAT
1 TTGAGAGAAAA
*
22132352 TTGAGAGGAAA
1 TTGAGAGAAAA
22132363 TTGAGAGAAAA
1 TTGAGAGAAAA
22132374 TT-AGAGAAA
1 TTGAGAGAAA
22132383 GAATTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 7 0.25
11 21 0.75
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (11 bp):
TTGAGAGAAAA
Found at i:22137003 original size:2 final size:2
Alignment explanation
Indices: 22136998--22137028 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22136988 ATAAAAATGC
22136998 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22137029 TATCTTCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22143453 original size:23 final size:24
Alignment explanation
Indices: 22143404--22143454 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
22143394 TTATGTTTTT
* *
22143404 AATTTTTTTTAAGATAAGCATATA
1 AATTATTTTTAAGATAAACATATA
**
22143428 AATTATTTTTAATCTAAACATA-A
1 AATTATTTTTAAGATAAACATATA
22143451 AATT
1 AATT
22143455 GTCATTTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (24 bp):
AATTATTTTTAAGATAAACATATA
Found at i:22144957 original size:22 final size:22
Alignment explanation
Indices: 22144929--22144970 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
22144919 TACATAATAG
22144929 ATTTATATTAAATAAAAAAAGT
1 ATTTATATTAAATAAAAAAAGT
*
22144951 ATTTATATTAAATCAAAAAA
1 ATTTATATTAAATAAAAAAA
22144971 TAAATTGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
ATTTATATTAAATAAAAAAAGT
Found at i:22152767 original size:26 final size:26
Alignment explanation
Indices: 22152737--22152789 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
22152727 TTATTAAGTC
*
22152737 AAATAAACTATGCTAATAAAAACTAA
1 AAATAAACTATACTAATAAAAACTAA
* * *
22152763 AAATATATTATACTAATAAATACTAA
1 AAATAAACTATACTAATAAAAACTAA
22152789 A
1 A
22152790 TCTTCTAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.28
Consensus pattern (26 bp):
AAATAAACTATACTAATAAAAACTAA
Found at i:22154707 original size:26 final size:26
Alignment explanation
Indices: 22154677--22154729 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
22154667 TTATTAAGTC
*
22154677 AAATAAACTATGCTAATAAAAACTAA
1 AAATAAACTATACTAATAAAAACTAA
* * *
22154703 AAATATATTATACTAATAAATACTAA
1 AAATAAACTATACTAATAAAAACTAA
22154729 A
1 A
22154730 TCTTCTAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.28
Consensus pattern (26 bp):
AAATAAACTATACTAATAAAAACTAA
Found at i:22155942 original size:38 final size:38
Alignment explanation
Indices: 22155894--22155992 Score: 128
Period size: 38 Copynumber: 2.6 Consensus size: 38
22155884 CGAATATAAT
* * *
22155894 AATTATAATTACCATAATTATAGTAATGTT-TGACCGAA
1 AATTATAATTACAATAATTATAATAATATTCT-ACCGAA
* * *
22155932 AATTACAATTACAATAATTATAATAATATTCTATCGTA
1 AATTATAATTACAATAATTATAATAATATTCTACCGAA
22155970 AATTATAATTACAATAATTATAA
1 AATTATAATTACAATAATTATAA
22155993 CAAGGATTTC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
38 52 0.98
39 1 0.02
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.38
Consensus pattern (38 bp):
AATTATAATTACAATAATTATAATAATATTCTACCGAA
Found at i:22160749 original size:22 final size:22
Alignment explanation
Indices: 22160724--22160765 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
22160714 CGGATAAACA
22160724 GAGAGCACAAATGTGCTAATCG
1 GAGAGCACAAATGTGCTAATCG
**
22160746 GAGAGCACTGATGTGCTAAT
1 GAGAGCACAAATGTGCTAAT
22160766 AATCAGAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (22 bp):
GAGAGCACAAATGTGCTAATCG
Found at i:22160808 original size:27 final size:25
Alignment explanation
Indices: 22160717--22160803 Score: 108
Period size: 25 Copynumber: 3.6 Consensus size: 25
22160707 GCCAAAACGG
* *
22160717 ATAAACAGAGAGCACAAATGTGC--
1 ATAATCAGAGAGCACTAATGTGCTA
* *
22160740 -TAATCGGAGAGCACTGATGTGCTA
1 ATAATCAGAGAGCACTAATGTGCTA
*
22160764 ATAATCAGAGAGCACTAATGTGGTA
1 ATAATCAGAGAGCACTAATGTGCTA
22160789 ATAATCAGAGAGCAC
1 ATAATCAGAGAGCAC
22160804 ACTAAGGTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
22 18 0.33
25 36 0.67
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.20
Consensus pattern (25 bp):
ATAATCAGAGAGCACTAATGTGCTA
Found at i:22164104 original size:224 final size:224
Alignment explanation
Indices: 22163714--22164164 Score: 866
Period size: 224 Copynumber: 2.0 Consensus size: 224
22163704 TACTTACACC
22163714 TTCGATTATTCATGGAGGTTAGTGATTCATTTAAGTTAGTTGGTGTGACTGAAGACGCACTAAGG
1 TTCGATTATTCATGGAGGTTAGTGATTCATTTAAGTTAGTTGGTGTGACTGAAGACGCACTAAGG
22163779 TTGAAACTATTTCCATACTCGTTGCGAGATCATGCACGAGCATGACTGAATTCATTGCCACCAAG
66 TTGAAACTATTTCCATACTCGTTGCGAGATCATGCACGAGCATGACTGAATTCATTGCCACCAAG
22163844 TTCAATATCTACTTGGAAAGAATTAGCAGAAAGATTTTTGGTTAAGTATTTTCCACCAAATAGGA
131 TTCAATATCTACTTGGAAAGAATTAGCAGAAAGATTTTTGGTTAAGTATTTTCCACCAAATAGGA
*
22163909 ACGTAAAGTTGTGTACTGAGATAACAACT
196 ACGTAAAGTTGTGTAATGAGATAACAACT
22163938 TTCGATTATTCATGGAGGTTAGTGATTCATTTAAGTTAGTTGGTGTGACTGAAGACGCACTAAGG
1 TTCGATTATTCATGGAGGTTAGTGATTCATTTAAGTTAGTTGGTGTGACTGAAGACGCACTAAGG
*
22164003 TTGAAACTATTTCCATACTCGTTGCGAGATCATGCACGAGCATGGCTGAATTCATTGCCACCAAG
66 TTGAAACTATTTCCATACTCGTTGCGAGATCATGCACGAGCATGACTGAATTCATTGCCACCAAG
* *
22164068 TTCAATATCTACTTGGAAAGAATTAGCAGAAAGATTTTTTGTTAAGTATTTTCCACCAAGTAGGA
131 TTCAATATCTACTTGGAAAGAATTAGCAGAAAGATTTTTGGTTAAGTATTTTCCACCAAATAGGA
22164133 ACGTAAAGTTGTGTAATGAGATAACAACT
196 ACGTAAAGTTGTGTAATGAGATAACAACT
22164162 TTC
1 TTC
22164165 CAACAATTAG
Statistics
Matches: 223, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
224 223 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (224 bp):
TTCGATTATTCATGGAGGTTAGTGATTCATTTAAGTTAGTTGGTGTGACTGAAGACGCACTAAGG
TTGAAACTATTTCCATACTCGTTGCGAGATCATGCACGAGCATGACTGAATTCATTGCCACCAAG
TTCAATATCTACTTGGAAAGAATTAGCAGAAAGATTTTTGGTTAAGTATTTTCCACCAAATAGGA
ACGTAAAGTTGTGTAATGAGATAACAACT
Found at i:22164941 original size:38 final size:37
Alignment explanation
Indices: 22164891--22164973 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 37
22164881 TTGACTGAAA
* * *
22164891 AAATTAAAATTACAATTATTATAA-TAATATTCTATCGT
1 AAATTATAATTACAATAATTATAACTAAGATT-T-TCGT
*
22164929 AAATTATAATTACAATAATTATAACTAAGATTTTGGT
1 AAATTATAATTACAATAATTATAACTAAGATTTTCGT
22164966 AAATTATA
1 AAATTATA
22164974 TTTGGTTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
37 11 0.28
38 23 0.57
39 6 0.15
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (37 bp):
AAATTATAATTACAATAATTATAACTAAGATTTTCGT
Found at i:22165855 original size:22 final size:20
Alignment explanation
Indices: 22165813--22165859 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
22165803 ACATCCCATG
*
22165813 TTAAT-GACAACACTTTGTC
1 TTAATAGACAACACTTAGTC
*
22165832 TTTAATAGACTACACATTAGTC
1 -TTAATAGACAACAC-TTAGTC
22165854 TTAATA
1 TTAATA
22165860 CATTATTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 13 0.57
22 5 0.22
ACGTcount: A:0.36, C:0.17, G:0.09, T:0.38
Consensus pattern (20 bp):
TTAATAGACAACACTTAGTC
Found at i:22169702 original size:21 final size:21
Alignment explanation
Indices: 22169676--22169731 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
22169666 AACAGTGGTG
* *
22169676 GCGGTGAGATTAGTTGCTGTA
1 GCGGTGAGATTAGATACTGTA
*
22169697 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
22169718 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
22169732 AACAATGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.23, C:0.09, G:0.39, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:22171102 original size:27 final size:27
Alignment explanation
Indices: 22171072--22171124 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
22171062 AACTGAGAAG
22171072 TGAATAGAAAGCACAAAATATCCTATT
1 TGAATAGAAAGCACAAAATATCCTATT
* *
22171099 TGAATAGAAAGCACAGAATATGCTAT
1 TGAATAGAAAGCACAAAATATCCTAT
22171125 AGTTTCAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.25
Consensus pattern (27 bp):
TGAATAGAAAGCACAAAATATCCTATT
Found at i:22179383 original size:26 final size:26
Alignment explanation
Indices: 22179345--22179394 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
22179335 GTTTGACTCG
*
22179345 TAAATATTGAATAATAATATTTACGA
1 TAAATATTAAATAATAATATTTACGA
22179371 TAAATATTAAATAATAATATTTAC
1 TAAATATTAAATAATAATATTTAC
22179395 AAACTTACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (26 bp):
TAAATATTAAATAATAATATTTACGA
Found at i:22183470 original size:38 final size:38
Alignment explanation
Indices: 22183416--22183537 Score: 172
Period size: 38 Copynumber: 3.2 Consensus size: 38
22183406 AATAAGTCTG
* *
22183416 AATAACACTGGTACTAAGCCTACTAGGCACTAAGCCTA
1 AATAACACTGGCACTAAGCCTGCTAGGCACTAAGCCTA
* * * *
22183454 AATAACATTGTCACTAAGCCTGCTAGGCACTAATCCTG
1 AATAACACTGGCACTAAGCCTGCTAGGCACTAAGCCTA
* *
22183492 AATAACACTGGCACTGAGTCTGCTAGGCACTAAGCCTA
1 AATAACACTGGCACTAAGCCTGCTAGGCACTAAGCCTA
22183530 AATAACAC
1 AATAACAC
22183538 CGACAATAAG
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 72 1.00
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.22
Consensus pattern (38 bp):
AATAACACTGGCACTAAGCCTGCTAGGCACTAAGCCTA
Found at i:22184599 original size:13 final size:13
Alignment explanation
Indices: 22184581--22184606 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22184571 TAAGTATAAC
22184581 TATTATATTATTA
1 TATTATATTATTA
22184594 TATTATATTATTA
1 TATTATATTATTA
22184607 GAAAAAGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:22185782 original size:23 final size:22
Alignment explanation
Indices: 22185752--22185837 Score: 106
Period size: 21 Copynumber: 4.0 Consensus size: 22
22185742 GCTTTGCCGA
22185752 TCAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
*
22185774 CTCGGGCACTTTATGTGTCGTA-
1 -TCAGGCACTTTATGTGTCGTAT
* **
22185796 TCAGGCACCTCGTGTGTCGT-T
1 TCAGGCACTTTATGTGTCGTAT
22185817 TCAGGCAC-TTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
22185838 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
20 9 0.17
21 25 0.46
23 20 0.37
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (22 bp):
TCAGGCACTTTATGTGTCGTAT
Found at i:22185802 original size:44 final size:41
Alignment explanation
Indices: 22185751--22185837 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 41
22185741 GGCTTTGCCG
* * *
22185751 ATCAGGCACTTTATGTGTCGTATCTCGGGCACTTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT-T-TCAGGCAC-TTATGTGTCGT
*
22185795 ATCAGGCACCTCGTGTGTCGTTTCAGGCACTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGTTTCAGGCACTTATGTGTCGT
22185836 AT
1 AT
22185838 ACTGATCAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 13 0.33
42 7 0.18
43 1 0.03
44 18 0.46
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (41 bp):
ATCAGGCACCTCATGTGTCGTTTCAGGCACTTATGTGTCGT
Found at i:22187384 original size:3 final size:3
Alignment explanation
Indices: 22187376--22187425 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
22187366 TATTGAAACA
22187376 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
22187424 AA
1 AA
22187426 AGTTTTGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:22188460 original size:13 final size:13
Alignment explanation
Indices: 22188428--22188454 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22188418 AAGTAAGGAG
22188428 AAAGAAAGAAGAA
1 AAAGAAAGAAGAA
22188441 AAAGAAAGAAGAA
1 AAAGAAAGAAGAA
22188454 A
1 A
22188455 GTGAAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAGAA
Found at i:22188774 original size:21 final size:21
Alignment explanation
Indices: 22188748--22188815 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
22188738 TATTTTTGAG
22188748 TACTGAATTGAATTGTGAAGT
1 TACTGAATTGAATTGTGAAGT
* *
22188769 TACTGAA-T--ATTGTTATGT
1 TACTGAATTGAATTGTGAAGT
* * *
22188787 GTACTGCATTGAACTGTGAAAT
1 -TACTGAATTGAATTGTGAAGT
22188809 TACTGAA
1 TACTGAA
22188816 GTAATGAATT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
18 8 0.23
19 6 0.17
20 2 0.06
21 13 0.37
22 6 0.17
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (21 bp):
TACTGAATTGAATTGTGAAGT
Found at i:22188791 original size:40 final size:41
Alignment explanation
Indices: 22188728--22188815 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 41
22188718 CATTAAGGAA
* * * *
22188728 TACTGAATATTATTTTTGAGTACTGAATTGAATTGTGAAGT
1 TACTGAATATTAGTTATGAGTACTGAATTGAACTGTGAAAT
* *
22188769 TACTGAATATT-GTTATGTGTACTGCATTGAACTGTGAAAT
1 TACTGAATATTAGTTATGAGTACTGAATTGAACTGTGAAAT
22188809 TACTGAA
1 TACTGAA
22188816 GTAATGAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
40 30 0.73
41 11 0.27
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (41 bp):
TACTGAATATTAGTTATGAGTACTGAATTGAACTGTGAAAT
Found at i:22189086 original size:45 final size:45
Alignment explanation
Indices: 22189019--22189119 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
22189009 GCCGACTACT
* * *
22189019 GTTACTGTTACCGATTCGACACTTTGTGTGTCAAATACTGTTACC
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCAAATACTATTACC
* ** *
22189064 GTTACTGTTATAGATTCAACACTTTGTGTGTTGAATACTATTACT
1 GTTACTGTTACAGATTCAACACTTTGTGTGTCAAATACTATTACC
22189109 GTTACTGTTAC
1 GTTACTGTTAC
22189120 TGCTACCGTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.42
Consensus pattern (45 bp):
GTTACTGTTACAGATTCAACACTTTGTGTGTCAAATACTATTACC
Found at i:22189113 original size:6 final size:6
Alignment explanation
Indices: 22189099--22189142 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
22189089 GTGTGTTGAA
* * *
22189099 TACTAT TACTGT TACTGT TACTGC TACCGT TACTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
22189143 TAGATGCTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
6 26 0.81
7 6 0.19
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (6 bp):
TACTGT
Found at i:22199282 original size:19 final size:19
Alignment explanation
Indices: 22199258--22199295 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
22199248 ATTGGATAAA
22199258 AAAAGTGGTGAGGTAATTC
1 AAAAGTGGTGAGGTAATTC
22199277 AAAAGTGGTGAGGTAATTC
1 AAAAGTGGTGAGGTAATTC
22199296 CTTCTGGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.32, T:0.26
Consensus pattern (19 bp):
AAAAGTGGTGAGGTAATTC
Found at i:22206906 original size:17 final size:17
Alignment explanation
Indices: 22206886--22206941 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
22206876 TTAAAAGTTT
*
22206886 ATATTTATTAGTGTTGA
1 ATATCTATTAGTGTTGA
*
22206903 ATATCTATTAGTGTTAA
1 ATATCTATTAGTGTTGA
*
22206920 ATATACAATATAGTGTTGA
1 ATAT-CTAT-TAGTGTTGA
22206939 ATA
1 ATA
22206942 ATTATTTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 19 0.58
18 3 0.09
19 11 0.33
ACGTcount: A:0.38, C:0.04, G:0.14, T:0.45
Consensus pattern (17 bp):
ATATCTATTAGTGTTGA
Found at i:22208112 original size:409 final size:409
Alignment explanation
Indices: 22207346--22208163 Score: 1483
Period size: 409 Copynumber: 2.0 Consensus size: 409
22207336 AATATTGGTG
22207346 TAATATTAAAGTTTGGAAGTCCAATTAGCATGATGTTCATAAAGGACATCACGTTAGTGGAGATG
1 TAATATTAAAGTTTGGAAGTCCAATTAGCATGATGTTCATAAAGGACATCACGTTAGTGGAGATG
22207411 AAGCACAAAATTGGTCGAAGCTCTTGTTGAGGTATAGATTTATATGATAATCCAATGAGATATTC
66 AAGCACAAAATTGGTCGAAGCTCTTGTTGAGGTATAGATTTATATGATAATCCAATGAGATATTC
* *
22207476 TACAATTAATGTAGTGGATGATGATGATCTCCAAATAATGACTACACTTTATGAGTCAAATGGTA
131 TACAATTAATGTAGCGGATGATGATGATCTCCAAATAATGAATACACTTTATGAGTCAAATGGTA
* * * *
22207541 GTGGAAGAGTTGAGTTGTATGTTGAGCTTGACAGTATTGAAGGACATGGGAGATCGATGTTCTAA
196 ATGGAAGAGTTAAGTTGTATGTTGAGCTTGACAGTATTGAAGGACATGGGAGATCGATATTCCAA
*
22207606 GCTTGTTGAATGGTTGCGTGCGTGCACATTAAAACACTGAATTTATACAATAATTTTTAAAGCCC
261 GCTTGTTGAACGGTTGCGTGCGTGCACATTAAAACACTGAATTTATACAATAATTTTTAAAGCCC
* *
22207671 GATTTTACTACAAGCGTACAGGTCAATTGTAATATTTATAATGTTACAATGAAACACTGAAGTAT
326 GATTTTACTACAAGCGTACAGGTCAATTGTAATATTTATAATGTTACAATGAAACAATAAAGTAT
22207736 TTCAAGGATCGAACCCAAA
391 TTCAAGGATCGAACCCAAA
22207755 TAATATTAAAGTTTGGAAGTCCAATTAGCATGATGTTCATAAAGGACATCACGTTAGTGGAGATG
1 TAATATTAAAGTTTGGAAGTCCAATTAGCATGATGTTCATAAAGGACATCACGTTAGTGGAGATG
* *
22207820 AAGTACAAAATTGGTCGAAGCTCTTGTTGAGGTATAGATTTATATGATAATCCAATGAGATATTT
66 AAGCACAAAATTGGTCGAAGCTCTTGTTGAGGTATAGATTTATATGATAATCCAATGAGATATTC
* *
22207885 TATAATTAATGTAGCGGATGATGATGATCTCCAAATAATGAATGCACTTTATGAGTCAAATGGTA
131 TACAATTAATGTAGCGGATGATGATGATCTCCAAATAATGAATACACTTTATGAGTCAAATGGTA
22207950 ATGGAAGAGTTAAGTTGTATGTTGAGCTTGACAGTATTGAAGGACATGGGAGATCGATATTCCAA
196 ATGGAAGAGTTAAGTTGTATGTTGAGCTTGACAGTATTGAAGGACATGGGAGATCGATATTCCAA
*
22208015 GCTTGTTGACCGGTTGCGTGCGTGCACATTAAAACACTGAATTTATACAATAATTTTTAAAGCCC
261 GCTTGTTGAACGGTTGCGTGCGTGCACATTAAAACACTGAATTTATACAATAATTTTTAAAGCCC
* * *
22208080 GGTTTTACTGCAAGCGTACAGGTCAGTTGTAATATTTATAATGTTACAATGAAACAATAAAGTAT
326 GATTTTACTACAAGCGTACAGGTCAATTGTAATATTTATAATGTTACAATGAAACAATAAAGTAT
22208145 TTCAAGGATCGAACCCAAA
391 TTCAAGGATCGAACCCAAA
22208164 GGAAGAGGCG
Statistics
Matches: 392, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
409 392 1.00
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.32
Consensus pattern (409 bp):
TAATATTAAAGTTTGGAAGTCCAATTAGCATGATGTTCATAAAGGACATCACGTTAGTGGAGATG
AAGCACAAAATTGGTCGAAGCTCTTGTTGAGGTATAGATTTATATGATAATCCAATGAGATATTC
TACAATTAATGTAGCGGATGATGATGATCTCCAAATAATGAATACACTTTATGAGTCAAATGGTA
ATGGAAGAGTTAAGTTGTATGTTGAGCTTGACAGTATTGAAGGACATGGGAGATCGATATTCCAA
GCTTGTTGAACGGTTGCGTGCGTGCACATTAAAACACTGAATTTATACAATAATTTTTAAAGCCC
GATTTTACTACAAGCGTACAGGTCAATTGTAATATTTATAATGTTACAATGAAACAATAAAGTAT
TTCAAGGATCGAACCCAAA
Found at i:22224839 original size:49 final size:51
Alignment explanation
Indices: 22224786--22224894 Score: 143
Period size: 49 Copynumber: 2.2 Consensus size: 51
22224776 GAAATCCTTG
22224786 TTCATTTCAAAATGAATTCATTTT-T-CATTTCCATTTT-GAGAAAACCACA
1 TTCATTTC-AAATGAATTCATTTTCTCCATTTCCATTTTGGAGAAAACCACA
* * *
22224835 TTCATGTTCAAATGATTTCATTTTCTCCATTTTCATTTTGGAGAAAACCATA
1 TTCAT-TTCAAATGAATTCATTTTCTCCATTTCCATTTTGGAGAAAACCACA
*
22224887 ATCATTTC
1 TTCATTTC
22224895 TTGAATGTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
49 19 0.37
50 4 0.08
51 14 0.27
52 15 0.29
ACGTcount: A:0.31, C:0.18, G:0.07, T:0.43
Consensus pattern (51 bp):
TTCATTTCAAATGAATTCATTTTCTCCATTTCCATTTTGGAGAAAACCACA
Found at i:22226164 original size:43 final size:43
Alignment explanation
Indices: 22226098--22226322 Score: 274
Period size: 43 Copynumber: 5.3 Consensus size: 43
22226088 ACATTTGAAT
* *
22226098 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTTCCAG
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCAC
*
22226141 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTTCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCAC
* * * *
22226183 AAACGCCGCTATAGTTCAAGATCTTTAACGGCGCTTTTTCTAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCAC
* * *
22226226 AAACGCCGCTGTAGATCAAGACTTTTAGCGGCGCTTTTTCATAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTC-CAC
* * * * * *
22226270 AAATGCCGTTATAGAGC-AGATCTTTAGCGGCGCTTTTTACAA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCAC
*
22226312 AAATGCCGCTA
1 AAACGCCGCTA
22226323 AAAACATATC
Statistics
Matches: 158, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
42 48 0.30
43 94 0.59
44 16 0.10
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTCCAC
Found at i:22226196 original size:85 final size:86
Alignment explanation
Indices: 22226098--22226322 Score: 283
Period size: 85 Copynumber: 2.6 Consensus size: 86
22226088 ACATTTGAAT
* * *
22226098 AAACGCCGCTATAGATCATGACCTTTAGCGGCGCTTTTTCCAGAAACGCCGCTATAGATCAGGAC
1 AAACGCCGCTATAGATCA-GATCTTTAGCGGCGCTTTTTCCAAAAACGCCGCTATAGATCAAGAC
22226163 CTTTAGCGGCGC-TTTTC-CAC
65 CTTTAGCGGCGCTTTTTCACAC
* * * * *
22226183 AAACGCCGCTATAGTTCAAGATCTTTAACGGCGCTTTTTCTACAAACGCCGCTGTAGATCAAGAC
1 AAACGCCGCTATAGATC-AGATCTTTAGCGGCGCTTTTTCCAAAAACGCCGCTATAGATCAAGAC
* *
22226248 TTTTAGCGGCGCTTTTTCATAC
65 CTTTAGCGGCGCTTTTTCACAC
* * * * *
22226270 AAATGCCGTTATAGAGCAGATCTTTAGCGGCGCTTTTTACAAAAATGCCGCTA
1 AAACGCCGCTATAGATCAGATCTTTAGCGGCGCTTTTTCCAAAAACGCCGCTA
22226323 AAAACATATC
Statistics
Matches: 118, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
85 67 0.57
86 36 0.31
87 15 0.13
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (86 bp):
AAACGCCGCTATAGATCAGATCTTTAGCGGCGCTTTTTCCAAAAACGCCGCTATAGATCAAGACC
TTTAGCGGCGCTTTTTCACAC
Found at i:22226654 original size:43 final size:43
Alignment explanation
Indices: 22226588--22226678 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 43
22226578 ACATATGCAA
* * *
22226588 GGTAATAAAACATACAATGCATTT-TCTTAATCAAGTAAATCTT
1 GGTAATAAAACAAACAATACATTTAT-TTAATCAAGGAAATCTT
* *
22226631 GGTAATAAAAGAAATAATACATTTATTTAATCAAGGAAATCTT
1 GGTAATAAAACAAACAATACATTTATTTAATCAAGGAAATCTT
22226674 -GTAAT
1 GGTAAT
22226679 GAACTCAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 5 0.12
43 36 0.86
44 1 0.02
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (43 bp):
GGTAATAAAACAAACAATACATTTATTTAATCAAGGAAATCTT
Found at i:22229460 original size:2 final size:2
Alignment explanation
Indices: 22229453--22229477 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22229443 ATTTTCCCTT
22229453 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
22229478 TTACGCTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22229692 original size:2 final size:2
Alignment explanation
Indices: 22229687--22229763 Score: 72
Period size: 2 Copynumber: 40.0 Consensus size: 2
22229677 TTCTACACCT
* * *
22229687 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TG TA TA TA CA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
22229728 TC T- TA -A T- TT TCA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
22229764 CGTAATTCTA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
1 4 0.06
2 58 0.92
3 1 0.02
ACGTcount: A:0.44, C:0.05, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:22229832 original size:14 final size:16
Alignment explanation
Indices: 22229795--22229835 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
22229785 TACTCTTTAA
22229795 TTTATATATACATACT
1 TTTATATATACATACT
**
22229811 TTTATATATACATGTT
1 TTTATATATACATACT
22229827 TTTATATAT
1 TTTATATAT
22229836 TTCCATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.56
Consensus pattern (16 bp):
TTTATATATACATACT
Found at i:22233277 original size:17 final size:18
Alignment explanation
Indices: 22233255--22233291 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
22233245 TTATTCTTTT
22233255 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
22233272 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
22233290 AT
1 AT
22233292 ACTGTGCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:22234030 original size:8 final size:9
Alignment explanation
Indices: 22234008--22234041 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
22233998 AGTTCAGACT
*
22234008 AAAAAAATAT
1 AAAAAAAT-C
22234018 AAAAAAATC
1 AAAAAAATC
22234027 AAAAAAATC
1 AAAAAAATC
22234036 AAAAAA
1 AAAAAA
22234042 GAAAAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAAATC
Found at i:22234047 original size:17 final size:16
Alignment explanation
Indices: 22234008--22234067 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 16
22233998 AGTTCAGACT
22234008 AAAAAAATATAAAAAA-
1 AAAAAAA-ATAAAAAAG
22234024 ATCAAAAAAATCAAAAAAG
1 A--AAAAAAAT-AAAAAAG
22234043 AAAAAGAAA-AAGAAAAG
1 AAAAA-AAATAA-AAAAG
22234060 AAAAAAAA
1 AAAAAAAA
22234068 GGAGAGGTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
16 6 0.16
17 16 0.42
18 15 0.39
19 1 0.03
ACGTcount: A:0.83, C:0.03, G:0.07, T:0.07
Consensus pattern (16 bp):
AAAAAAAATAAAAAAG
Found at i:22234866 original size:12 final size:11
Alignment explanation
Indices: 22234849--22234878 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
22234839 CACTTTGAGT
22234849 AAAAAAAAAAC
1 AAAAAAAAAAC
22234860 AAAAAAAAAAC
1 AAAAAAAAAAC
22234871 AAAAAAAA
1 AAAAAAAA
22234879 TGAAATGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:22234906 original size:7 final size:8
Alignment explanation
Indices: 22234881--22234922 Score: 68
Period size: 8 Copynumber: 5.2 Consensus size: 8
22234871 AAAAAAAATG
22234881 AAATGAAAA
1 AAATG-AAA
22234890 AAATGAAA
1 AAATGAAA
22234898 AAATG-AA
1 AAATGAAA
22234905 AAATGAAA
1 AAATGAAA
22234913 AAATGAAA
1 AAATGAAA
22234921 AA
1 AA
22234923 GTAAAAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.22
8 20 0.62
9 5 0.16
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AAATGAAA
Found at i:22234921 original size:22 final size:24
Alignment explanation
Indices: 22234873--22234930 Score: 79
Period size: 22 Copynumber: 2.6 Consensus size: 24
22234863 AAAAAAACAA
22234873 AAAAAATG--AAATGAAAAAAATG
1 AAAAAATGAAAAATGAAAAAAATG
22234895 AAAAAATGAAAAATG-AAAAAATG
1 AAAAAATGAAAAATGAAAAAAATG
*
22234918 AAAAAGT-AAAAAT
1 AAAAAATGAAAAAT
22234931 AGAGAGGCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
22 14 0.42
23 14 0.42
24 5 0.15
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (24 bp):
AAAAAATGAAAAATGAAAAAAATG
Found at i:22234929 original size:15 final size:15
Alignment explanation
Indices: 22234888--22234922 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
22234878 ATGAAATGAA
22234888 AAAAATGAAAAAATG
1 AAAAATGAAAAAATG
22234903 AAAAATGAAAAAATG
1 AAAAATGAAAAAATG
22234918 AAAAA
1 AAAAA
22234923 GTAAAAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (15 bp):
AAAAATGAAAAAATG
Found at i:22236365 original size:100 final size:99
Alignment explanation
Indices: 22236192--22236580 Score: 467
Period size: 100 Copynumber: 3.9 Consensus size: 99
22236182 CATAGTTTGT
22236192 AATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAGC-ATTGCAGTGGAACAGATTG
1 AATTAAAAAGATTGAAGCTACAACAGCGGATCTTA-TTTCCTAGCGA-TGCAGTGGAACAGATTG
22236256 AAGCTACAACAGCGGATCTTACTTCCCTGACATTGC
64 AAGCTACAACAGCGGATCTTACTTCCCTGACATTGC
* * * * * * *
22236292 AATTAAGAAGATTGAAGCTATAACAGTGGATTTTATTTTCCTAGCGGTGTAGTGGAGCAGATTGA
1 AATTAAAAAGATTGAAGCTACAACAGCGGATCTTA-TTTCCTAGCGATGCAGTGGAACAGATTGA
22236357 AGCTACAACAGCGGATCTTACTTCCCTGACATTGC
65 AGCTACAACAGCGGATCTTACTTCCCTGACATTGC
* * * * *
22236392 AGTTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCAGGCGATGCAATGGAATAGATTGA
1 AATTAAAAAGATTGAAGCTACAACAGCGGATCTTATTTCCTA-GCGATGCAGTGGAACAGATTGA
* * * *
22236457 AGCTACAACGGCGAATCTCACTTCCCCGACATTGC
65 AGCTACAACAGCGGATCTTACTTCCCTGACATTGC
* * ** * **
22236492 AATTTAAAAGATTGAAGCTACAACGGCAAATCTTATTTCCCAG-GTAGTGCAGCAGAACAGATTG
1 AATTAAAAAGATTGAAGCTACAACAGCGGATCTTATTTCCTAGCG-A-TGCAGTGGAACAGATTG
* ** *
22236556 AAGCCACAATGGCGAATCTTACTTC
64 AAGCTACAACAGCGGATCTTACTTC
22236581 TCAGGTGATG
Statistics
Matches: 248, Mismatches: 37, Indels: 8
0.85 0.13 0.03
Matches are distributed among these distances:
98 1 0.00
99 7 0.03
100 240 0.97
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (99 bp):
AATTAAAAAGATTGAAGCTACAACAGCGGATCTTATTTCCTAGCGATGCAGTGGAACAGATTGAA
GCTACAACAGCGGATCTTACTTCCCTGACATTGC
Found at i:22236504 original size:150 final size:149
Alignment explanation
Indices: 22236192--22236717 Score: 434
Period size: 150 Copynumber: 3.5 Consensus size: 149
22236182 CATAGTTTGT
* * **
22236192 AATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCT-AGCATTGCAGTGGAACAGATTG
1 AATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGA-CATTGCAGTCAAACAGATTG
* * * * *
22236256 AAGCTACAACAGCGGATCTTACTTCCCTGAC-ATTGCAATTAAGAAGATTGAAGCTATAACAGTG
65 AAGCTACAACAGCGGATCTTACTTCCCAGGCGA-TGCAATGAA-TAGATTGAAGCTATAACGGTG
* * * ** * ** *
22236320 GATTTTA-TTTTCCTAGCGGTGT
128 AATCTCACTTCCCCGA-CATTGC
* ** ** * * *
22236342 AGTGGAGCAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAGTTAAAAAGATTGA
1 AATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTCAAACAGATTGA
* *
22236407 AGCTACAACAGCGGATCTTACTTCCCAGGCGATGCAATGGAATAGATTGAAGCTACAACGGCGAA
66 AGCTACAACAGCGGATCTTACTTCCCAGGCGATGCAAT-GAATAGATTGAAGCTATAACGGTGAA
22236472 TCTCACTTCCCCGACATTGC
130 TCTCACTTCCCCGACATTGC
* * * * * ** *
22236492 AATTTAAAAGATTGAAGCTACAACGGCAAATCTTATTTCCCAGGTAGTGCAG-CAGAACAGATTG
1 AATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTCA-AACAGATTG
* ** * * * *
22236556 AAGCCACAATGGCGAATCTTACTTCTCAGGTGATGCAGCA-GAATAGATTGAAGCTATGACGGTG
65 AAGCTACAACAGCGGATCTTACTTCCCAGGCGATGCA--ATGAATAGATTGAAGCTATAACGGTG
*
22236620 AATCTCGCTTCCCCGACATTGC
128 AATCTCACTTCCCCGACATTGC
* * * * * * * * * *
22236642 AACTCAAAAGATTGAAGCCACAATAGAGAATCTTACTTCCCAGGCAATGCAG-CGGAACAGATTA
1 AATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTC-AAACAGATTG
*
22236706 AAGCTACGACAG
65 AAGCTACAACAG
22236718 TGAATCTCGT
Statistics
Matches: 302, Mismatches: 66, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
149 1 0.00
150 291 0.96
151 9 0.03
152 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (149 bp):
AATTAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACATTGCAGTCAAACAGATTGA
AGCTACAACAGCGGATCTTACTTCCCAGGCGATGCAATGAATAGATTGAAGCTATAACGGTGAAT
CTCACTTCCCCGACATTGC
Found at i:22236516 original size:50 final size:50
Alignment explanation
Indices: 22236197--22236781 Score: 318
Period size: 50 Copynumber: 11.7 Consensus size: 50
22236187 TTTGTAATTA
* * * **
22236197 AAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCTAG-CATTGCAGTGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTAC-TTCCCAGACATTGCAACGG
* * * * **
22236247 AACAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAA-TT
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACATTGCAACGG
* * * * * * * ** * **
22236296 AAGAAGATTGAAGCTATAACAGTGGATTTTATTTTCCTAG-CGGTGTAGTGG
1 AA-AAGATTGAAGCTACAACGGCGAATCTTA-CTTCCCAGACATTGCAACGG
** * * * ****
22236347 AGCAGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAGTTA
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACATTGCAACGG
* * * *
22236397 AAAAGATTGAAGCTACAACAGCGGATCTTACTTCCCAGGCGA-TGCAATGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGAC-ATTGCAACGG
* * * ***
22236447 AATAGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATTT
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACATTGCAACGG
* * ** * * *
22236497 AAAAGATTGAAGCTACAACGGCAAATCTTATTTCCCAGGTAGTGCAGCAG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACATTGCAACGG
* * * * ** * *
22236547 AACAGATTGAAGCCACAATGGCGAATCTTACTTCTCAGGTGA-TGCAGCAG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCA-GACATTGCAACGG
* ** * ** * **
22236597 AATAGATTGAAGCTATGACGGTGAATCTCGCTTCCCCGACATTGCAACTC
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACATTGCAACGG
* ** * * * *
22236647 AAAAGATTGAAGCCACAATAGAGAATCTTACTTCCCAGGCAATGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACATTGCAACGG
* * * * * *** * *
22236697 AACAGATTAAAGCTACGACAGTGAATCTCGTTTCCCTGACATTGCAA-GT
1 AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACATTGCAACGG
*
22236746 AAATAGATTAAAGCTACAACGGCGAATCTTACTTCC
1 AAA-AGATTGAAGCTACAACGGCGAATCTTACTTCC
22236782 TGAAATTGCA
Statistics
Matches: 407, Mismatches: 118, Indels: 20
0.75 0.22 0.04
Matches are distributed among these distances:
49 18 0.04
50 380 0.93
51 9 0.02
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (50 bp):
AAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCAGACATTGCAACGG
Found at i:22236723 original size:150 final size:150
Alignment explanation
Indices: 22236350--22236781 Score: 440
Period size: 150 Copynumber: 2.9 Consensus size: 150
22236340 GTAGTGGAGC
* * * * * * *
22236350 AGATTGAAGCTACAACAGCGGATCTTACTTCCCTGACATTGCAGTTA-AAAAGATTGAAGCTACA
1 AGATTGAAGCTACAACAGAGAATCTTACTTCCCAGGCAATGCAG-CAGAACAGATTGAAGCTACA
* **
22236414 ACAGCGGATCTTACTTCCCAGGCGATGCAATGGAATAGATTGAAGCTACAACGGCGAATCTCACT
65 ACAGCGAATCTTACTTCCCAGGCGATGCAACAGAATAGATTGAAGCTACAACGGCGAATCTCACT
* *
22236479 TCCCCGACATTGCAATTTAAA
130 TCCCCGACATTGCAACTCAAA
* * * * *
22236500 AGATTGAAGCTACAACGGCA-AATCTTATTTCCCAGGTAGTGCAGCAGAACAGATTGAAGCCACA
1 AGATTGAAGCTACAACAG-AGAATCTTACTTCCCAGGCAATGCAGCAGAACAGATTGAAGCTACA
** * * * ** * *
22236564 ATGGCGAATCTTACTTCTCAGGTGATGCAGCAGAATAGATTGAAGCTATGACGGTGAATCTCGCT
65 ACAGCGAATCTTACTTCCCAGGCGATGCAACAGAATAGATTGAAGCTACAACGGCGAATCTCACT
22236629 TCCCCGACATTGCAACTCAAA
130 TCCCCGACATTGCAACTCAAA
* * * * *
22236650 AGATTGAAGCCACAATAGAGAATCTTACTTCCCAGGCAATGCAGCGGAACAGATTAAAGCTACGA
1 AGATTGAAGCTACAACAGAGAATCTTACTTCCCAGGCAATGCAGCAGAACAGATTGAAGCTACAA
* *** * * * * *
22236715 CAGTGAATCTCGTTTCCCTGAC-ATTGCAAGTA-AATAGATTAAAGCTACAACGGCGAATCTTAC
66 CAGCGAATCTTACTTCCCAGGCGA-TGCAA-CAGAATAGATTGAAGCTACAACGGCGAATCTCAC
22236778 TTCC
129 TTCC
22236782 TGAAATTGCA
Statistics
Matches: 224, Mismatches: 53, Indels: 10
0.78 0.18 0.03
Matches are distributed among these distances:
149 3 0.01
150 220 0.98
151 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (150 bp):
AGATTGAAGCTACAACAGAGAATCTTACTTCCCAGGCAATGCAGCAGAACAGATTGAAGCTACAA
CAGCGAATCTTACTTCCCAGGCGATGCAACAGAATAGATTGAAGCTACAACGGCGAATCTCACTT
CCCCGACATTGCAACTCAAA
Found at i:22237072 original size:44 final size:44
Alignment explanation
Indices: 22237004--22237119 Score: 135
Period size: 44 Copynumber: 2.6 Consensus size: 44
22236994 CCACAAAGAG
* * *
22237004 TCACAAATTCTATCTCCCTAAAGTTGCAATGGAGCGGATTAAAA
1 TCACAAATCCTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAA
* *
22237048 TCACAAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAA
1 TCACAAATCCTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAA
* ** *
22237092 TGATGAATCCTATACT-TCTGAAGTTGCA
1 TCACAAATCCTAT-CTCCCTGAAGTTGCA
22237120 GTAGGTCGGA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
44 59 0.97
45 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (44 bp):
TCACAAATCCTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAA
Found at i:22239003 original size:2 final size:2
Alignment explanation
Indices: 22238998--22239066 Score: 56
Period size: 2 Copynumber: 36.0 Consensus size: 2
22238988 TTCTACACAT
* * * *
22238998 TA TA TA TA CA TA TA TA TA TA TA TA TA TT TA TA TA CA TA T- TC
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
22239039 T- TA -A T- TT TCA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA
22239067 CGTAATTCTA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
1 4 0.07
2 50 0.91
3 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22239037 original size:12 final size:13
Alignment explanation
Indices: 22238991--22239037 Score: 60
Period size: 14 Copynumber: 3.6 Consensus size: 13
22238981 ATATGTTTTC
*
22238991 TACACATTATATA
1 TACATATTATATA
22239004 TACATATATATATA
1 TACATAT-TATATA
*
22239018 TATATATT-TATA
1 TACATATTATATA
22239030 TACATATT
1 TACATATT
22239038 CTTAATTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 11 0.37
13 7 0.23
14 12 0.40
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.47
Consensus pattern (13 bp):
TACATATTATATA
Found at i:22239088 original size:35 final size:34
Alignment explanation
Indices: 22239012--22239089 Score: 95
Period size: 35 Copynumber: 2.2 Consensus size: 34
22239002 TATACATATA
*
22239012 TATATATATATATTTATATACATATTCTTAATTT
1 TATATATATATATATATATACATATTCTTAATTT
* *
22239046 TCATATATATATATATATATACGTAATTCTATACTTT
1 T-ATATATATATATATATATACAT-ATTCT-TAATTT
22239083 T-TATATA
1 TATATATA
22239090 CTCTTTAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
34 1 0.03
35 26 0.68
36 5 0.13
37 6 0.16
ACGTcount: A:0.38, C:0.08, G:0.01, T:0.53
Consensus pattern (34 bp):
TATATATATATATATATATACATATTCTTAATTT
Found at i:22239135 original size:14 final size:16
Alignment explanation
Indices: 22239098--22239138 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
22239088 TACTCTTTAA
22239098 TTTATATATACATACT
1 TTTATATATACATACT
**
22239114 TTTATATATACATGTT
1 TTTATATATACATACT
22239130 TTTATATAT
1 TTTATATAT
22239139 TTCCATTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.56
Consensus pattern (16 bp):
TTTATATATACATACT
Found at i:22243523 original size:114 final size:113
Alignment explanation
Indices: 22243323--22243638 Score: 524
Period size: 114 Copynumber: 2.8 Consensus size: 113
22243313 AAATGTTTTT
* * *
22243323 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTAAAAGGTCAAAAAACGATATCATTGGGCTTAG
1 GCGGCGCTTTT-TAAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAACGATGTCATTGGGCTTAG
*
22243388 GATTTTTGCGGCGCTTTTCCAAAAAACACCGCTAAAGCTCTGAGCATTA
65 GTTTTTTGCGGCGCTTTTCCAAAAAACACCGCTAAAGCTCTGAGCATTA
*
22243437 GCGGCGCTATTTTAAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAAAGATGTCATTGGGCTTAG
1 GCGGCGCT-TTTTAAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAACGATGTCATTGGGCTTAG
* * *
22243502 GTTTTTTACGGTGCTTTTCCAAAAAACGCCGCTAAAGCTCTGAGCATTA
65 GTTTTTTGCGGCGCTTTTCCAAAAAACACCGCTAAAGCTCTGAGCATTA
*
22243551 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAG
1 GCGGCGCTTTTT-AAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAACGATGTCATTGGGCTTAG
22243616 GTTTTTTGCGGCGCTTTTCCAAA
65 GTTTTTTGCGGCGCTTTTCCAAA
22243639 GCCCTGAAAG
Statistics
Matches: 188, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
113 4 0.02
114 181 0.96
115 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (113 bp):
GCGGCGCTTTTTAAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAACGATGTCATTGGGCTTAGG
TTTTTTGCGGCGCTTTTCCAAAAAACACCGCTAAAGCTCTGAGCATTA
Found at i:22243664 original size:59 final size:60
Alignment explanation
Indices: 22243576--22243697 Score: 228
Period size: 59 Copynumber: 2.0 Consensus size: 60
22243566 AAACGCCGCT
*
22243576 AAAGCCCTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTTCC
1 AAAGCCCTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAGGATTTTTGCGGCGCTTTTCC
22243636 AAAGCCCTGAAAGGT-AAAAAACGATGTCGTTGGGCTTAGGATTTTTGCGGCGCTTTTCC
1 AAAGCCCTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAGGATTTTTGCGGCGCTTTTCC
22243695 AAA
1 AAA
22243698 AAACGCCGCT
Statistics
Matches: 61, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 46 0.75
60 15 0.25
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (60 bp):
AAAGCCCTGAAAGGTCAAAAAACGATGTCGTTGGGCTTAGGATTTTTGCGGCGCTTTTCC
Found at i:22243781 original size:173 final size:173
Alignment explanation
Indices: 22243462--22243806 Score: 566
Period size: 173 Copynumber: 2.0 Consensus size: 173
22243452 AAACGCCGCT
* *
22243462 AAAGCCCTGAAAGGTCAAAAAAAGATGTCATTGGGCTTAGGTTTTTTACGGTGCTTTTCCAAAAA
1 AAAGCCCTGAAAGGTCAAAAAAAGATGTCATTGGGCTTAGGATTTTTACGGCGCTTTTCCAAAAA
* * *
22243527 ACGCCGCTAAAGCTCTGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAAAGGTC
66 ACGCCGCTAAAGCTCTAAGCATTAGCGGCACTTTTTCAAAAACGCCGCTAAAGCACTGAAAGGTC
*
22243592 AAAAAACGATGTCGTTGGGCTTAGGTTTTTTGCGGCGCTTTTCC
131 AAAAAACGATGTCGTTGAGCTTA-GTTTTTTGCGGCGCTTTTCC
* * *
22243636 AAAGCCCTGAAAGGT-AAAAAACGATGTCGTTGGGCTTAGGATTTTTGCGGCGCTTTTCCAAAAA
1 AAAGCCCTGAAAGGTCAAAAAAAGATGTCATTGGGCTTAGGATTTTTACGGCGCTTTTCCAAAAA
22243700 ACGCCGCTAAAGCTCTAAGCATTAGCGGCACTTTTTCAAAAACGCCGCTAAAGCACTGAAAGGTC
66 ACGCCGCTAAAGCTCTAAGCATTAGCGGCACTTTTTCAAAAACGCCGCTAAAGCACTGAAAGGTC
* **
22243765 AAAAAATGATGTCGTTGAGCTTAGTTTTTTGCGTTGCTTTTC
131 AAAAAACGATGTCGTTGAGCTTAGTTTTTTGCGGCGCTTTTC
22243807 TAAAAAACGC
Statistics
Matches: 159, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
172 17 0.11
173 127 0.80
174 15 0.09
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (173 bp):
AAAGCCCTGAAAGGTCAAAAAAAGATGTCATTGGGCTTAGGATTTTTACGGCGCTTTTCCAAAAA
ACGCCGCTAAAGCTCTAAGCATTAGCGGCACTTTTTCAAAAACGCCGCTAAAGCACTGAAAGGTC
AAAAAACGATGTCGTTGAGCTTAGTTTTTTGCGGCGCTTTTCC
Found at i:22243816 original size:113 final size:113
Alignment explanation
Indices: 22243636--22243937 Score: 428
Period size: 113 Copynumber: 2.7 Consensus size: 113
22243626 GCGCTTTTCC
* *
22243636 AAAGCCCTGAAAGGT-AAAAAACGATGTCGTTGGGCTTAGGATTTTTGCGGCGCTTTTCCAAAAA
1 AAAGCCCTGAAAGGTCAAAAAACGATGTCGTT-GGCTTAGGTTTTTTGCGGCGCTTTTCTAAAAA
*
22243700 ACGCCGCTAAAGCTCTAAGCATTAGCGGCACTTTTTCAAAAACGCCGCT
65 ACGCCGCTAAAGCTCTAAGCATTAGCGGCACTTTTTCAAAAACACCGCT
* * **
22243749 AAAGCACTGAAAGGTCAAAAAATGATGTCGTTGAGCTTA-GTTTTTTGCGTTGCTTTTCTAAAAA
1 AAAGCCCTGAAAGGTCAAAAAACGATGTCGTTG-GCTTAGGTTTTTTGCGGCGCTTTTCTAAAAA
* **
22243813 ACGCCGCTAAAGCTCTGAGCATTAGCGGCGTTTTTTCAAAAACACCGCT
65 ACGCCGCTAAAGCTCTAAGCATTAGCGGCACTTTTTCAAAAACACCGCT
* *
22243862 AAAGCCCTAAAAGGTCAAAAAAACGATGTCGTTGGACTTAGGTTTTTTGCGGCGCTTTTTTAAAA
1 AAAGCCCTGAAAGGTC-AAAAAACGATGTCGTTGG-CTTAGGTTTTTTGCGGCGCTTTTCTAAAA
**
22243927 AATACCGCTAA
64 AACGCCGCTAA
22243938 TACTATTCTT
Statistics
Matches: 166, Mismatches: 18, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
113 96 0.58
114 40 0.24
115 30 0.18
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (113 bp):
AAAGCCCTGAAAGGTCAAAAAACGATGTCGTTGGCTTAGGTTTTTTGCGGCGCTTTTCTAAAAAA
CGCCGCTAAAGCTCTAAGCATTAGCGGCACTTTTTCAAAAACACCGCT
Found at i:22243885 original size:287 final size:288
Alignment explanation
Indices: 22243348--22243920 Score: 954
Period size: 287 Copynumber: 2.0 Consensus size: 288
22243338 AAACGCCGCT
22243348 AAAGCCCTAAAAGGTCAAAAAACGATATCATTGGGCTTAGGATTTTTGCGGCGCTTTTCCAAAAA
1 AAAGCCCTAAAAGGTCAAAAAACGATATCATTGGGCTTAGGATTTTTGCGGCGCTTTTCCAAAAA
* * *
22243413 ACACCGCTAAAGCTCTGAGCATTAGCGGCGCTATTTTAAAAACGCCGCTAAAGCCCTGAAAGGTC
66 ACACCGCTAAAGCTCTAAGCATTAGCGGCACTATTTTAAAAACGCCGCTAAAGCACTGAAAGGTC
*
22243478 AAAAAAAGATGTCATTGGGCTTAGGTTTTTTACGGTGCTTTTCCAAAAAACGCCGCTAAAGCTCT
131 AAAAAAAGATGTCATTGAGCTTAGGTTTTTTACGGTGCTTTTCCAAAAAACGCCGCTAAAGCTCT
* *
22243543 GAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCTGAAAGGTCAAAAAACGATGTCGTT
196 GAGCATTAGCGGCGCTTTTTCAAAAACACCGCTAAAGCCCTAAAAGGTCAAAAAACGATGTCGTT
*
22243608 GGGCTTAGGTTTTTTGCGGCGCTTTTCC
261 GGACTTAGGTTTTTTGCGGCGCTTTTCC
* * *
22243636 AAAGCCCTGAAAGGT-AAAAAACGATGTCGTTGGGCTTAGGATTTTTGCGGCGCTTTTCCAAAAA
1 AAAGCCCTAAAAGGTCAAAAAACGATATCATTGGGCTTAGGATTTTTGCGGCGCTTTTCCAAAAA
*
22243700 ACGCCGCTAAAGCTCTAAGCATTAGCGGCACT-TTTTCAAAAACGCCGCTAAAGCACTGAAAGGT
66 ACACCGCTAAAGCTCTAAGCATTAGCGGCACTATTTT-AAAAACGCCGCTAAAGCACTGAAAGGT
* * * * *
22243764 CAAAAAATGATGTCGTTGAGCTTA-GTTTTTTGCGTTGCTTTTCTAAAAAACGCCGCTAAAGCTC
130 CAAAAAAAGATGTCATTGAGCTTAGGTTTTTTACGGTGCTTTTCCAAAAAACGCCGCTAAAGCTC
*
22243828 TGAGCATTAGCGGCGTTTTTTCAAAAACACCGCTAAAGCCCTAAAAGGTCAAAAAAACGATGTCG
195 TGAGCATTAGCGGCGCTTTTTCAAAAACACCGCTAAAGCCCTAAAAGGTC-AAAAAACGATGTCG
22243893 TTGGACTTAGGTTTTTTGCGGCGCTTTT
259 TTGGACTTAGGTTTTTTGCGGCGCTTTT
22243921 TTAAAAAATA
Statistics
Matches: 266, Mismatches: 17, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
286 88 0.33
287 164 0.62
288 14 0.05
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (288 bp):
AAAGCCCTAAAAGGTCAAAAAACGATATCATTGGGCTTAGGATTTTTGCGGCGCTTTTCCAAAAA
ACACCGCTAAAGCTCTAAGCATTAGCGGCACTATTTTAAAAACGCCGCTAAAGCACTGAAAGGTC
AAAAAAAGATGTCATTGAGCTTAGGTTTTTTACGGTGCTTTTCCAAAAAACGCCGCTAAAGCTCT
GAGCATTAGCGGCGCTTTTTCAAAAACACCGCTAAAGCCCTAAAAGGTCAAAAAACGATGTCGTT
GGACTTAGGTTTTTTGCGGCGCTTTTCC
Found at i:22244040 original size:40 final size:40
Alignment explanation
Indices: 22243944--22244041 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 40
22243934 CTAATACTAT
* ***
22243944 TCTTTAGTGGCATTTTCCAAAAAGCGCCGCTAATGCTCGA
1 TCTTTAGCGGCATTTTTTGAAAAGCGCCGCTAATGCTCGA
** *
22243984 TCTTTAGCGGTGTTTTTTGAAAAGCGCCGCTAATGCTTGA
1 TCTTTAGCGGCATTTTTTGAAAAGCGCCGCTAATGCTCGA
22244024 T-TTTCAGCGGCATTTTTT
1 TCTTT-AGCGGCATTTTTT
22244042 ATCCAAACGC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
39 3 0.06
40 45 0.94
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.38
Consensus pattern (40 bp):
TCTTTAGCGGCATTTTTTGAAAAGCGCCGCTAATGCTCGA
Found at i:22264345 original size:3 final size:3
Alignment explanation
Indices: 22264337--22264362 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22264327 CTCTCTCATC
22264337 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
22264363 TCTCGAGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:22275094 original size:102 final size:100
Alignment explanation
Indices: 22274959--22275147 Score: 324
Period size: 102 Copynumber: 1.9 Consensus size: 100
22274949 TATAAAAAAT
22274959 TTACATTAATAAAAAATCACAAAAAACTAAACTAAACACTAACAAGTTATATAACATAATCATAA
1 TTACATTAATAAAAAATCACAAAAAACTAAACTAAACACTAACAAGTTATA-AAC-TAATCATAA
22275024 ATTACTAACAAAATAACTATAAAATTATTTTTTTAAA
64 ATTACTAACAAAATAACTATAAAATTATTTTTTTAAA
* ** *
22275061 TTACATTACTAAAAAATCACAAAACCCTAAACTAAACACTAACAATTTATAAACTAATCATAAAT
1 TTACATTAATAAAAAATCACAAAAAACTAAACTAAACACTAACAAGTTATAAACTAATCATAAAT
22275126 TACTAACAAAATAACTATAAAA
66 TACTAACAAAATAACTATAAAA
22275148 ATATATACAT
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
100 33 0.40
101 3 0.04
102 47 0.57
ACGTcount: A:0.56, C:0.15, G:0.01, T:0.28
Consensus pattern (100 bp):
TTACATTAATAAAAAATCACAAAAAACTAAACTAAACACTAACAAGTTATAAACTAATCATAAAT
TACTAACAAAATAACTATAAAATTATTTTTTTAAA
Found at i:22275142 original size:12 final size:12
Alignment explanation
Indices: 22275112--22275214 Score: 50
Period size: 12 Copynumber: 8.2 Consensus size: 12
22275102 ACAATTTATA
22275112 AACTAATCATAAAT
1 AACTAA-CA-AAAT
*
22275126 TACTAACAAAAT
1 AACTAACAAAAT
*
22275138 AACTATAAAAATAT
1 AACTA-ACAAA-AT
*
22275152 ATACATTACTAAAA-
1 A-AC-TAAC-AAAAT
*
22275166 AA-TCACAAAA-
1 AACTAACAAAAT
*
22275176 CACTAACATAAAT
1 AACTAACA-AAAT
*
22275189 TACTAACAAAAT
1 AACTAACAAAAT
*
22275201 AATTAACAAAAT
1 AACTAACAAAAT
22275213 AA
1 AA
22275215 ATTTACATCA
Statistics
Matches: 70, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
10 5 0.07
11 7 0.10
12 27 0.39
13 14 0.20
14 9 0.13
15 4 0.06
16 4 0.06
ACGTcount: A:0.61, C:0.15, G:0.00, T:0.24
Consensus pattern (12 bp):
AACTAACAAAAT
Found at i:22275191 original size:31 final size:33
Alignment explanation
Indices: 22275111--22275202 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 33
22275101 AACAATTTAT
22275111 AAACTAATCATAAATTACTAACAAAATAACTATA
1 AAACTAA-CATAAATTACTAACAAAATAACTATA
* * * *
22275145 AAAAT-ATATACATTACTAA-AAAATCAC-A-A
1 AAACTAACATAAATTACTAACAAAATAACTATA
22275174 AACACTAACATAAATTACTAACAAAATAA
1 AA-ACTAACATAAATTACTAACAAAATAA
22275203 TTAACAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
29 3 0.06
30 3 0.06
31 19 0.40
32 17 0.36
33 1 0.02
34 4 0.09
ACGTcount: A:0.61, C:0.15, G:0.00, T:0.24
Consensus pattern (33 bp):
AAACTAACATAAATTACTAACAAAATAACTATA
Found at i:22275192 original size:63 final size:64
Alignment explanation
Indices: 22275113--22275261 Score: 205
Period size: 65 Copynumber: 2.3 Consensus size: 64
22275103 CAATTTATAA
* *
22275113 ACTAATCATAAATTACTAACAAAATAACTATA-AAAAT-ATATACATTACTAAAAAATCACAAAA
1 ACTAA-CATAAATTACTAACAAAATAACTA-ACAAAATAATATACATCAATAAAAAATCACAAAA
22275176 C
64 C
* *
22275177 ACTAACATAAATTACTAACAAAATAATTAACAAAATAAATTTACATCAATAAAAAATCACAAAAC
1 ACTAACATAAATTACTAACAAAATAACTAACAAAAT-AATATACATCAATAAAAAATCACAAAAC
*
22275242 ACTAACA-AAATAACTAACAA
1 ACTAACATAAATTACTAACAA
22275262 TTTATAACAA
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
62 1 0.01
63 28 0.36
64 17 0.22
65 31 0.40
ACGTcount: A:0.61, C:0.16, G:0.00, T:0.23
Consensus pattern (64 bp):
ACTAACATAAATTACTAACAAAATAACTAACAAAATAATATACATCAATAAAAAATCACAAAAC
Found at i:22280268 original size:2 final size:2
Alignment explanation
Indices: 22280261--22280291 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22280251 TAATATACAA
22280261 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
22280292 TATATATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:22287615 original size:25 final size:25
Alignment explanation
Indices: 22287584--22287657 Score: 76
Period size: 26 Copynumber: 2.9 Consensus size: 25
22287574 ATGAGTTTTC
22287584 TCAAAATTTTATTGGGGTAAAATCG
1 TCAAAATTTTATTGGGGTAAAATCG
** ** *
22287609 TTTAAATTTTATCAAGGGTAAAATTG
1 TCAAAATTTTAT-TGGGGTAAAATCG
* *
22287635 TCAAAATTTTGTTGGAGTAAAAT
1 TCAAAATTTTATTGGGGTAAAAT
22287658 TGGGATGAGA
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
25 18 0.49
26 19 0.51
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.39
Consensus pattern (25 bp):
TCAAAATTTTATTGGGGTAAAATCG
Found at i:22289662 original size:31 final size:31
Alignment explanation
Indices: 22289627--22289688 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
22289617 TACACCCAAG
22289627 ATCTTCTAATTAAGTAACTCCCCACAAAACT
1 ATCTTCTAATTAAGTAACTCCCCACAAAACT
22289658 ATCTTCTAATTAAGTAACTCCCCACAAAACT
1 ATCTTCTAATTAAGTAACTCCCCACAAAACT
22289689 CTACATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.29, G:0.03, T:0.29
Consensus pattern (31 bp):
ATCTTCTAATTAAGTAACTCCCCACAAAACT
Found at i:22289700 original size:31 final size:30
Alignment explanation
Indices: 22289627--22289701 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 30
22289617 TACACCCAAG
*
22289627 ATCTTCTAATTAAGTAACTCCCCACAAAAC
1 ATCTACTAATTAAGTAACTCCCCACAAAAC
*
22289657 TATCTTCTAATTAAGTAACTCCCCACAAAAC
1 -ATCTACTAATTAAGTAACTCCCCACAAAAC
22289688 -TCTACATAAATTAA
1 ATCTAC-T-AATTAA
22289702 AACCTTGAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 4 0.10
30 1 0.02
31 36 0.88
ACGTcount: A:0.41, C:0.27, G:0.03, T:0.29
Consensus pattern (30 bp):
ATCTACTAATTAAGTAACTCCCCACAAAAC
Found at i:22291354 original size:131 final size:131
Alignment explanation
Indices: 22291106--22291418 Score: 374
Period size: 131 Copynumber: 2.4 Consensus size: 131
22291096 AGTGATTAAG
* * * * * * *
22291106 AAATCAACTAACACAGATGAGATTGTTCATGATATTAAACCGAATGAACTTAGGCTGCAATCTTA
1 AAATCAACTAACTCAAATAAAATTATTCATGATATTAAATCGAATGAACTTAGGCTACAATCTTA
* ** * * * * *
22291171 AATTAGTGAGTCGTTAATGATATCAGATGTGATATTGAATAACTAGCAATTTAGATTAGCGATAG
66 AATTAGTGAGCCGTTAACAATATCAGATGCGATATTAAATAACGAGCAATTTAAAGTAGCGATAG
22291236 T
131 T
*** * * *
22291237 AAATTGGCTAACTCAAATAAAATTATTCATGATATTGAATCGAATGAGCTTAGGCTACAGTCTTA
1 AAATCAACTAACTCAAATAAAATTATTCATGATATTAAATCGAATGAACTTAGGCTACAATCTTA
* * * *
22291302 AATTAGTGAGCCGTTAACAATATTAGTTGCGATCTTAAATAACGAGCTATTTAAAGTAGCGATAG
66 AATTAGTGAGCCGTTAACAATATCAGATGCGATATTAAATAACGAGCAATTTAAAGTAGCGATAG
22291367 T
131 T
* * *
22291368 AAATCAACTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGTACTT
1 AAATCAACTAACTCAAATAAAATTATTCATGATATTAAATCGAATGAACTT
22291419 GGACTGCGAT
Statistics
Matches: 149, Mismatches: 33, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
131 149 1.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.32
Consensus pattern (131 bp):
AAATCAACTAACTCAAATAAAATTATTCATGATATTAAATCGAATGAACTTAGGCTACAATCTTA
AATTAGTGAGCCGTTAACAATATCAGATGCGATATTAAATAACGAGCAATTTAAAGTAGCGATAG
T
Found at i:22291495 original size:95 final size:95
Alignment explanation
Indices: 22291359--22291956 Score: 689
Period size: 95 Copynumber: 6.4 Consensus size: 95
22291349 TATTTAAAGT
* * *
22291359 AGCGATAGTAAATCAACTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGTACTT-GGAC
1 AGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGG-C
* * * * *
22291423 TGCGATATTAAATTAGCAAGCCATTTGGAGC
65 TACGATCTTAAATCAGCGAGCCGTTTGGAGC
* * * ** * *
22291454 AACAATATTAAATCGGCTAACTCGGATAAAATTGTTGATGATGTTAAATTGAATGAACTTAGGCT
1 AGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGGCT
* *
22291519 ATGATCTTAAATCAGCGAGCTGTTTGGAGC
66 ACGATCTTAAATCAGCGAGCCGTTTGGAGC
* * * * *
22291549 AGTGATATTAAATTAGCTAACTCAAATAAAATTGTTTATGATGTTAAATCGAATGAATTTAAGCT
1 AGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGGCT
* * * *
22291614 GCGATCTTAAACCACCGAGCCATTTGGAGC
66 ACGATCTTAAATCAGCGAGCCGTTTGGAGC
* * * * * *
22291644 GGCGATATTAAATCACCTAACTTAGATAAAAATGTTCATGATGTTAAATCGAGTGAACTTAGGCT
1 AGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGGCT
22291709 ACGATCTTAAATCAGCGAGCCGTTTGGAGC
66 ACGATCTTAAATCAGCGAGCCGTTTGGAGC
* * *
22291739 TGTGATATTAAATTAGCTAACTCAAATAAAA-TGTTCATGATGTTAAATCGAATGAACTTAGGCT
1 AGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGGCT
* *
22291803 ACAATCTTAAATCAACGAGCCGTTTGGAGC
66 ACGATCTTAAATCAGCGAGCCGTTTGGAGC
* * * * * *
22291833 TGCGATATTAAATCATCTAACTTAGATAAAATTGTTCATGATATTAAACCGAATG-----A----
1 AGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGGCT
*
22291889 A-GATCTTAAATCAGCGAGCCGTTTGGAGT
66 ACGATCTTAAATCAGCGAGCCGTTTGGAGC
* *
22291918 AGCGATATTAAATCAACTAACTCAAATAAAGTTGTTCAT
1 AGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCAT
22291957 AATAGATAAA
Statistics
Matches: 428, Mismatches: 73, Indels: 14
0.83 0.14 0.03
Matches are distributed among these distances:
85 59 0.14
86 1 0.00
90 1 0.00
94 86 0.20
95 279 0.65
96 2 0.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (95 bp):
AGCGATATTAAATCAGCTAACTCAAATAAAATTGTTCATGATGTTAAATCGAATGAACTTAGGCT
ACGATCTTAAATCAGCGAGCCGTTTGGAGC
Found at i:22298812 original size:20 final size:20
Alignment explanation
Indices: 22298787--22298826 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
22298777 TTGGAACTAG
* *
22298787 AAAATATTTTGTTAACATTA
1 AAAATAATTTATTAACATTA
*
22298807 AAAATAATTTATTAATATTA
1 AAAATAATTTATTAACATTA
22298827 TTATCTCTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (20 bp):
AAAATAATTTATTAACATTA
Found at i:22302655 original size:15 final size:15
Alignment explanation
Indices: 22302635--22302710 Score: 66
Period size: 15 Copynumber: 4.9 Consensus size: 15
22302625 CAATGAAAAG
22302635 GATGAAAAGGTTATC
1 GATGAAAAGGTTATC
*
22302650 GATGAAAAGGTTGTC
1 GATGAAAAGGTTATC
22302665 GATAAGAAAA--TTATC
1 GAT--GAAAAGGTTATC
* *
22302680 GATTGAAAATGTTATT
1 GA-TGAAAAGGTTATC
*
22302696 GATTGAAAAGATTAT
1 GA-TGAAAAGGTTAT
22302711 TCAAATAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
14 5 0.10
15 23 0.45
16 18 0.35
17 5 0.10
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (15 bp):
GATGAAAAGGTTATC
Found at i:22302710 original size:16 final size:17
Alignment explanation
Indices: 22302674--22302711 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
22302664 CGATAAGAAA
*
22302674 ATTATCGATTGAAAATG
1 ATTATTGATTGAAAATG
22302691 -TTATTGATTGAAAA-G
1 ATTATTGATTGAAAATG
22302706 ATTATT
1 ATTATT
22302712 CAAATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 1 0.05
16 18 0.95
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.42
Consensus pattern (17 bp):
ATTATTGATTGAAAATG
Found at i:22315180 original size:71 final size:70
Alignment explanation
Indices: 22315061--22315420 Score: 353
Period size: 71 Copynumber: 5.1 Consensus size: 70
22315051 GAAATGATTT
* * * ** *
22315061 CACACATATTTTTCGGTTGTACCAACCAATGCAGGG-AGCATTTATTGTCGGTTAGATCAACCAG
1 CACACATATTTTT-TGTTTTACTAACCAGCGCAGGGCA-CATTTATTGTCGGTTATATCAACCAG
22315125 TGCTGGG
64 TGCTGGG
* * * * * **
22315132 CACACATATTTGTTGGTTTTACTAATCAGCGTAGGGCGCACTTATTGTCGGTTATATTGACCAGT
1 CACACATATTT-TTTGTTTTACTAACCAGCGCAGGGCACATTTATTGTCGGTTATATCAACCAGT
22315197 GCTGGG
65 GCTGGG
* ** * *
22315203 CACACATATTTTTCTGTTTTACTGACCAGCGCAGGGCACATTTATTGTCAATTATATCGACCAGA
1 CACACATATTTTT-TGTTTTACTAACCAGCGCAGGGCACATTTATTGTCGGTTATATCAACCAGT
22315268 GCTGGG
65 GCTGGG
* * * * * *
22315274 CACACATATTTATTTATTTTACCAACCAGCGCAGGGCACATTTATTTTTGGTTATACCAACTAGT
1 CACACATATTT-TTTGTTTTACTAACCAGCGCAGGGCACATTTATTGTCGGTTATATCAACCAGT
22315339 GCTGGG
65 GCTGGG
* ** * * * ** *
22315345 CACACATATTTTTCAGTCCTACCAACTAGAGCAGGGCACATTTATTGTTAGTTATACCAACCAGT
1 CACACATATTTTT-TGTTTTACTAACCAGCGCAGGGCACATTTATTGTCGGTTATATCAACCAGT
*
22315410 GCTAGG
65 GCTGGG
22315416 CACAC
1 CACAC
22315421 TCATTATTGA
Statistics
Matches: 242, Mismatches: 42, Indels: 10
0.82 0.14 0.03
Matches are distributed among these distances:
70 4 0.02
71 234 0.97
72 4 0.02
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (70 bp):
CACACATATTTTTTGTTTTACTAACCAGCGCAGGGCACATTTATTGTCGGTTATATCAACCAGTG
CTGGG
Found at i:22315319 original size:142 final size:142
Alignment explanation
Indices: 22315061--22315434 Score: 414
Period size: 142 Copynumber: 2.6 Consensus size: 142
22315051 GAAATGATTT
* * * *
22315061 CACACATATTTTTCGGTTGTACCAACCA-ATGCAGGG-AGCATTTATTGTCGGTTAGATCAACCA
1 CACACATATTTTTCAGTTCTACCAACCAGA-GCAGGGCA-CATTTATTGTCAGTTATATCAACCA
* * * * * * *
22315124 GTGCTGGGCACACATATTTGTTGGTTTTACTAATCAGCGTAGGGCGCACTTATTGTCGGTTATAT
64 GTGCTGGGCACACATATTTATTGATTTTACCAACCAGCGCAGGGCACACTTATTGTCGGTTATAC
**
22315189 TGACCAGTGCTGGG
129 CAACCAGTGCTGGG
* * ** * * * *
22315203 CACACATATTTTTCTGTTTTACTGACCAGCGCAGGGCACATTTATTGTCAATTATATCGACCAGA
1 CACACATATTTTTCAGTTCTACCAACCAGAGCAGGGCACATTTATTGTCAGTTATATCAACCAGT
* * * *
22315268 GCTGGGCACACATATTTATTTATTTTACCAACCAGCGCAGGGCACATTTATTTTTGGTTATACCA
66 GCTGGGCACACATATTTATTGATTTTACCAACCAGCGCAGGGCACACTTATTGTCGGTTATACCA
*
22315333 ACTAGTGCTGGG
131 ACCAGTGCTGGG
* * * *
22315345 CACACATATTTTTCAGTCCTACCAACTAGAGCAGGGCACATTTATTGTTAGTTATACCAACCAGT
1 CACACATATTTTTCAGTTCTACCAACCAGAGCAGGGCACATTTATTGTCAGTTATATCAACCAGT
*
22315410 GCTAGGCACAC-TCA-TTATTGATTTT
66 GCTGGGCACACAT-ATTTATTGATTTT
22315435 TTCGGTTAGC
Statistics
Matches: 191, Mismatches: 38, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
141 11 0.06
142 179 0.94
143 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (142 bp):
CACACATATTTTTCAGTTCTACCAACCAGAGCAGGGCACATTTATTGTCAGTTATATCAACCAGT
GCTGGGCACACATATTTATTGATTTTACCAACCAGCGCAGGGCACACTTATTGTCGGTTATACCA
ACCAGTGCTGGG
Found at i:22315346 original size:35 final size:35
Alignment explanation
Indices: 22315191--22315419 Score: 138
Period size: 35 Copynumber: 6.5 Consensus size: 35
22315181 GGTTATATTG
* ** * * **
22315191 ACCAGTGCTGGGCACACATATTTTTCTGTTTTACTG
1 ACCAGTGCAGGGCACATTTATTTTT-AGTTATACCA
* * * * * *
22315227 ACCAGCGCAGGGCACATTTATTGTCAATTATATCG
1 ACCAGTGCAGGGCACATTTATTTTTAGTTATACCA
* * ** *
22315262 ACCAGAGCTGGGCACACATATTTATTTA-TTTTACCA
1 ACCAGTGCAGGGCACATTTA-TT-TTTAGTTATACCA
* *
22315298 ACCAGCGCAGGGCACATTTATTTTTGGTTATACCA
1 ACCAGTGCAGGGCACATTTATTTTTAGTTATACCA
* * ** **
22315333 ACTAGTGCTGGGCACACATATTTTTCAGTCCTACCA
1 ACCAGTGCAGGGCACATTTATTTTT-AGTTATACCA
* * *
22315369 ACTAGAGCAGGGCACATTTATTGTTAGTTATACCA
1 ACCAGTGCAGGGCACATTTATTTTTAGTTATACCA
22315404 ACCAGTGCTA-GGCACA
1 ACCAGTGC-AGGGCACA
22315420 CTCATTATTG
Statistics
Matches: 145, Mismatches: 43, Indels: 11
0.73 0.22 0.06
Matches are distributed among these distances:
34 3 0.02
35 70 0.48
36 70 0.48
37 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (35 bp):
ACCAGTGCAGGGCACATTTATTTTTAGTTATACCA
Found at i:22315382 original size:36 final size:35
Alignment explanation
Indices: 22315265--22315405 Score: 122
Period size: 36 Copynumber: 4.0 Consensus size: 35
22315255 TATATCGACC
* * *
22315265 AGAGCTGGGCACACATATTTATTTA-TTTTACCAACC
1 AGAGCAGGGCACACATA-TT-TTTAGTTATACCAACT
* ** *
22315301 AGCGCAGGGCACATTTATTTTTGGTTATACCAACT
1 AGAGCAGGGCACACATATTTTTAGTTATACCAACT
* * **
22315336 AGTGCTGGGCACACATATTTTTCAGTCCTACCAACT
1 AGAGCAGGGCACACATATTTTT-AGTTATACCAACT
** *
22315372 AGAGCAGGGCACATTTATTGTTAGTTATACCAAC
1 AGAGCAGGGCACACATATTTTTAGTTATACCAAC
22315406 CAGTGCTAGG
Statistics
Matches: 82, Mismatches: 21, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
34 3 0.04
35 39 0.48
36 40 0.49
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (35 bp):
AGAGCAGGGCACACATATTTTTAGTTATACCAACT
Found at i:22320128 original size:20 final size:19
Alignment explanation
Indices: 22320105--22320165 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
22320095 CATCTCTGCG
22320105 TTTCCCTTTTTTCCTTCTTA
1 TTTCCC-TTTTTCCTTCTTA
*
22320125 TTTCCC---TT-CATCTTA
1 TTTCCCTTTTTCCTTCTTA
*
22320140 TTTTCCTTATTTCCTTCTTA
1 TTTCCCTT-TTTCCTTCTTA
22320160 TTTCCC
1 TTTCCC
22320166 CATCTGCTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 11 0.34
16 2 0.06
19 2 0.06
20 17 0.53
ACGTcount: A:0.08, C:0.31, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTCCCTTTTTCCTTCTTA
Found at i:22320423 original size:15 final size:15
Alignment explanation
Indices: 22320403--22320446 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22320393 TGTAGTTGAA
22320403 GATGACGACGACAAC
1 GATGACGACGACAAC
* * *
22320418 GATGACGAGGACGAT
1 GATGACGACGACAAC
*
22320433 GATGACGATGACAA
1 GATGACGACGACAA
22320447 GGATAAAGAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.39, C:0.18, G:0.32, T:0.11
Consensus pattern (15 bp):
GATGACGACGACAAC
Found at i:22323080 original size:21 final size:21
Alignment explanation
Indices: 22323039--22323081 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
22323029 AATAAAGTAG
*
22323039 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
22323060 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
22323081 A
1 A
22323082 AATTCAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:22323132 original size:38 final size:37
Alignment explanation
Indices: 22323090--22323161 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 37
22323080 TAAATTCAAA
* *
22323090 TAATAATAATTATAG-TAAGAATTTTATTAAATTATATT
1 TAATAATAATTAT-GTTAA-AATATGATTAAATTATATT
22323128 TAATAATAATTATGTTAAAATATGATTAAATTAT
1 TAATAATAATTATGTTAAAATATGATTAAATTAT
22323162 TTATTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
37 15 0.48
38 16 0.52
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (37 bp):
TAATAATAATTATGTTAAAATATGATTAAATTATATT
Found at i:22323338 original size:16 final size:16
Alignment explanation
Indices: 22323314--22323353 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
22323304 CAAGAATACT
* *
22323314 ATTACAGCTCTATTCC
1 ATTACAGCTATATTCA
*
22323330 ATTATAGCTATATTCA
1 ATTACAGCTATATTCA
22323346 ATTACAGC
1 ATTACAGC
22323354 GAACCAAATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTATATTCA
Found at i:22328553 original size:2 final size:2
Alignment explanation
Indices: 22328542--22328585 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
22328532 TCACTAAAAC
22328542 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22328583 AT A
1 AT A
22328586 NNNNNNNNNN
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22331160 original size:25 final size:25
Alignment explanation
Indices: 22331128--22331180 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
22331118 TATTTTCTCA
* *
22331128 AAATTTTACTAGGCGCAAAATCGTC
1 AAATTTTACCAGGCGCAAAATCATC
* *
22331153 AAATTTTACCAGGGGTAAAATCATC
1 AAATTTTACCAGGCGCAAAATCATC
22331178 AAA
1 AAA
22331181 AGTTTGTTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (25 bp):
AAATTTTACCAGGCGCAAAATCATC
Found at i:22332542 original size:13 final size:13
Alignment explanation
Indices: 22332524--22332548 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22332514 AAGTAAAGAT
22332524 CATCCAAAAATAA
1 CATCCAAAAATAA
22332537 CATCCAAAAATA
1 CATCCAAAAATA
22332549 GTTCATAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (13 bp):
CATCCAAAAATAA
Done.