Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 154 of 292
Found at i:45800793 original size:51 final size:51
Alignment explanation
Indices: 45800604--45800801 Score: 256
Period size: 51 Copynumber: 3.9 Consensus size: 51
45800594 TGAACCTTAG
** **
45800604 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAATACCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTACTACTATGTGAAGGCCACTTTGT
* * *
45800655 GAATATAATAGCTTTGAACACAAGTGTGAC-ACTATGTGAAGGTCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGT-ACTACTATGTGAAGGCCACTTTGT
**
45800706 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTACTACTATGTGAAGGCCACTTTGT
* * *
45800757 GAATAAAATAGCTTTGG-CTAAAAGGGTACTAATATGTGAAGGCCA
1 GAATAAAATAGCTTTGGAC-ACAAGTGTACTACTATGTGAAGGCCA
45800802 TCGTGTATTC
Statistics
Matches: 127, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
50 1 0.01
51 126 0.99
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.29
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTACTACTATGTGAAGGCCACTTTGT
Found at i:45800793 original size:102 final size:102
Alignment explanation
Indices: 45800604--45800798 Score: 295
Period size: 102 Copynumber: 1.9 Consensus size: 102
45800594 TGAACCTTAG
* *
45800604 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAATACCACTTTGTGAATATAATAGCTT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGACCACTTTGTGAATAAAATAGCTT
* * *
45800669 TGAACACAAGTGTGACACTATGTGAAGGTCACTTTGT
66 TGAACAAAAGGGTGACAATATGTGAAGGTCACTTTGT
*
45800706 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAATAAAATAGCTT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGACCACTTTGTGAATAAAATAGCTT
*
45800771 TG-GCTAAAAGGGT-ACTAATATGTGAAGG
66 TGAAC-AAAAGGGTGAC-AATATGTGAAGG
45800799 CCATCGTGTA
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
101 3 0.04
102 81 0.96
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (102 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGACCACTTTGTGAATAAAATAGCTT
TGAACAAAAGGGTGACAATATGTGAAGGTCACTTTGT
Found at i:45803388 original size:48 final size:43
Alignment explanation
Indices: 45803293--45803439 Score: 145
Period size: 42 Copynumber: 3.3 Consensus size: 43
45803283 TAGGAAAATC
* * * * * * * *
45803293 GCACACTTAGTGCCAAATAAATAGCTGAAGTTGTATCAATCTC
1 GCACACTAAGTGCCAAATATATAGCAGAAGCTATCTCGATCTT
45803336 GCACACTAAGTGCCAATATGTATATATAGCAGAAGCTATCTCGATCTT
1 GCACACTAAGTGCC-A-A---ATATATAGCAGAAGCTATCTCGATCTT
*
45803384 GCACACTAAGTG-CAAATATATAGCCGAAGCTATCTCGAT-TT
1 GCACACTAAGTGCCAAATATATAGCAGAAGCTATCTCGATCTT
45803425 CGCACACTAAGTGCC
1 -GCACACTAAGTGCC
45803440 CATAAATAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
41 2 0.02
42 35 0.40
43 14 0.16
44 1 0.01
45 2 0.02
46 1 0.01
47 1 0.01
48 32 0.36
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (43 bp):
GCACACTAAGTGCCAAATATATAGCAGAAGCTATCTCGATCTT
Found at i:45803968 original size:21 final size:20
Alignment explanation
Indices: 45803939--45803978 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
45803929 ACTTATTTAT
* *
45803939 CTATTATCAACCATTCAAAAG
1 CTATCATCAAACA-TCAAAAG
45803960 CTATCATCAAACATCAAAA
1 CTATCATCAAACATCAAAA
45803979 TACATACTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (20 bp):
CTATCATCAAACATCAAAAG
Found at i:45806044 original size:6 final size:6
Alignment explanation
Indices: 45806033--45806060 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
45806023 GTCTGTTATT
45806033 TGTATC TGTATC TGTATC TGTATC TGTA
1 TGTATC TGTATC TGTATC TGTATC TGTA
45806061 AAGGACTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.18, T:0.50
Consensus pattern (6 bp):
TGTATC
Found at i:45816109 original size:29 final size:27
Alignment explanation
Indices: 45816018--45816132 Score: 104
Period size: 29 Copynumber: 4.1 Consensus size: 27
45816008 TTCACATACC
* * *
45816018 TTATATGGCCCATTAAGCCCATTCATA
1 TTATATGGCCCATTAGGCCCAATCACA
* *
45816045 TTCATATGGCCCATTAGGCTCAAATCACC
1 TT-ATATGGCCCATTAGGC-CCAATCACA
45816074 TGTATATGGCCCATTAGGCCCAAATCACA
1 T-TATATGGCCCATTAGGCCC-AATCACA
* * * *
45816103 TTAATATAGCTCGTTAGGCCCAGTCACA
1 TT-ATATGGCCCATTAGGCCCAATCACA
45816131 TT
1 TT
45816133 CATAATCATG
Statistics
Matches: 72, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
27 2 0.03
28 25 0.35
29 44 0.61
30 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.30
Consensus pattern (27 bp):
TTATATGGCCCATTAGGCCCAATCACA
Found at i:45824983 original size:18 final size:20
Alignment explanation
Indices: 45824960--45825011 Score: 72
Period size: 18 Copynumber: 2.6 Consensus size: 20
45824950 CGGGGTCAAG
45824960 ACACGGGCGTGTGTG-A-CC
1 ACACGGGCGTGTGTGAATCC
*
45824978 ACACGGGCGTGTCTGATATCC
1 ACACGGGCGTGTGTGA-ATCC
45824999 ACACGGGCGTGTG
1 ACACGGGCGTGTG
45825012 ACCCCTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 14 0.48
20 1 0.03
21 14 0.48
ACGTcount: A:0.17, C:0.27, G:0.37, T:0.19
Consensus pattern (20 bp):
ACACGGGCGTGTGTGAATCC
Found at i:45827079 original size:29 final size:29
Alignment explanation
Indices: 45827047--45827111 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
45827037 AACCATGACG
*
45827047 CATATATTTTATATATAACAAAA-TCCACA
1 CATATATTATATATATAACAAAACT-CACA
* *
45827076 CATATATTATATATATAACGAAACTCACG
1 CATATATTATATATATAACAAAACTCACA
45827105 CATATAT
1 CATATAT
45827112 AGGTATTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 31 0.97
30 1 0.03
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (29 bp):
CATATATTATATATATAACAAAACTCACA
Found at i:45827112 original size:31 final size:30
Alignment explanation
Indices: 45827008--45827112 Score: 90
Period size: 31 Copynumber: 3.4 Consensus size: 30
45826998 TAAGACCCTA
*
45827008 CACGCATATATATATATTGTATATAACATAACCAT
1 CACGCATATATAT-TA-TATATATAACA-AA-C-T
* *
45827043 GACGCATATAT-TT-TATATATAACAAAAT
1 CACGCATATATATTATATATATAACAAACT
* *
45827071 C-CACACATATATTATATATATAACGAAACT
1 CACGCATATATATTATATATATAAC-AAACT
45827101 CACGCATATATA
1 CACGCATATATA
45827113 GGTATTATGT
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
27 7 0.12
28 3 0.05
29 10 0.18
30 7 0.12
31 18 0.32
33 1 0.02
34 1 0.02
35 10 0.18
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (30 bp):
CACGCATATATATTATATATATAACAAACT
Found at i:45829806 original size:2 final size:2
Alignment explanation
Indices: 45829799--45829837 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
45829789 ACATACATAA
45829799 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45829838 ACATGCAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:45831089 original size:2 final size:2
Alignment explanation
Indices: 45831082--45831112 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
45831072 CTGAATGTAC
45831082 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45831113 ACAAAGTATC
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45832443 original size:16 final size:18
Alignment explanation
Indices: 45832424--45832456 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
45832414 CATACAAATT
45832424 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
45832440 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
45832457 GTGACAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:45833080 original size:43 final size:43
Alignment explanation
Indices: 45833018--45833145 Score: 170
Period size: 43 Copynumber: 3.0 Consensus size: 43
45833008 CTGAACTCAT
* * *
45833018 TCACCGGCATTA-CGCCTGCTAGGCTCGAAGCCCGATATTAAC
1 TCACCGACATTATAGCCTGCTAGGCTCGAAGCCCGATAGTAAC
* *
45833060 TCA-TGTGCATTATAGCCTGCTAGGCTCGAAGCCCGATAGTAAC
1 TCACCG-ACATTATAGCCTGCTAGGCTCGAAGCCCGATAGTAAC
45833103 TCACCGACATTATAGCCTGCTAGGCTCGAAGTCCCGAATAGTA
1 TCACCGACATTATAGCCTGCTAGGCTCGAAG-CCCG-ATAGTA
45833146 CTGTACGATA
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
41 1 0.01
42 9 0.12
43 55 0.72
44 5 0.07
45 6 0.08
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (43 bp):
TCACCGACATTATAGCCTGCTAGGCTCGAAGCCCGATAGTAAC
Found at i:45835548 original size:14 final size:14
Alignment explanation
Indices: 45835531--45835558 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45835521 TCACGAAAAT
45835531 TTCACACATATAAA
1 TTCACACATATAAA
45835545 TTCACACATATAAA
1 TTCACACATATAAA
45835559 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (14 bp):
TTCACACATATAAA
Found at i:45840761 original size:2 final size:2
Alignment explanation
Indices: 45840748--45840790 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
45840738 AACAGAATAC
*
45840748 AT AT AT AA 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
45840790 A
1 A
45840791 ACATGCAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:45840930 original size:2 final size:2
Alignment explanation
Indices: 45840923--45840950 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
45840913 ATACATCAAT
45840923 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45840951 ATGATCCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45841347 original size:2 final size:2
Alignment explanation
Indices: 45841335--45841374 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
45841325 CAATAACCAA
*
45841335 AT AT TT 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
45841375 CCAAAACACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:45842406 original size:43 final size:42
Alignment explanation
Indices: 45842351--45842507 Score: 142
Period size: 41 Copynumber: 3.7 Consensus size: 42
45842341 ATATCGTACA
45842351 ATGCCAACGTCCCAGACGTGGTCTTACATGCTAACTCATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATG-TAACTCATATCG
* *
45842394 ATGCC-ACTGTCCCAGATAG-GGTCTTACATG-AA-TCAAATACG
1 ATGCCAAC-GTCCCAGA-CGTGGTCTTACATGTAACTCATAT-CG
* * * * * * *
45842435 ATGCCGATGTCCCAGACATTGTCTTATACGTAGACACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTA-ACTC--ATATCG
45842480 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
45842508 CGAAAACACA
Statistics
Matches: 89, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
40 5 0.06
41 25 0.28
42 4 0.04
43 25 0.28
44 2 0.02
45 25 0.28
46 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAACTCATATCG
Found at i:45842492 original size:45 final size:45
Alignment explanation
Indices: 45842351--45842520 Score: 138
Period size: 45 Copynumber: 3.9 Consensus size: 45
45842341 ATATCGTACA
* * ** *
45842351 ATGCCAACGTCCCAGACGTGGTCTTACATGCTAACTC--ATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAAACACATATATCG
* * * *
45842394 ATGCC-ACTGTCCCAGATAGGGTCTTACATG-AATCA-A-ATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAAACACATATATCG
* * * * * *
45842435 ATGCCGATGTCCCAGACATTGTCTTATACGTAGACACATATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAAACACATATATCG
*
45842480 ATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATAT
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAAACACATAT
45842521 CAAAAATCCT
Statistics
Matches: 99, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
41 24 0.24
42 11 0.11
43 25 0.25
44 3 0.03
45 36 0.36
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (45 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAAACACATATATCG
Found at i:45843673 original size:14 final size:15
Alignment explanation
Indices: 45843654--45843682 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
45843644 TTACGAAAGT
45843654 TTCACACAT-ATAAA
1 TTCACACATAATAAA
45843668 TTCACACATAATAAA
1 TTCACACATAATAAA
45843683 AACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:45844318 original size:13 final size:13
Alignment explanation
Indices: 45844300--45844328 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
45844290 TATTAAAAAC
45844300 CCTAATATTTAAA
1 CCTAATATTTAAA
45844313 CCTAATATTTAAA
1 CCTAATATTTAAA
45844326 CCT
1 CCT
45844329 TAAGAGATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (13 bp):
CCTAATATTTAAA
Found at i:45848655 original size:25 final size:25
Alignment explanation
Indices: 45848605--45848655 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
45848595 GAAGACCGGC
* *
45848605 ATGCTCTCACGAGCTATGAGTCGGT
1 ATGCTCTCACGAGCTATAAATCGGT
* *
45848630 ATGCTCTTACGAGCTATAAATTGGT
1 ATGCTCTCACGAGCTATAAATCGGT
45848655 A
1 A
45848656 ACCCTAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (25 bp):
ATGCTCTCACGAGCTATAAATCGGT
Found at i:45848774 original size:2 final size:2
Alignment explanation
Indices: 45848769--45848800 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
45848759 AATTCATAAC
45848769 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
45848801 TTCAATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45850647 original size:46 final size:48
Alignment explanation
Indices: 45850580--45850798 Score: 203
Period size: 47 Copynumber: 4.7 Consensus size: 48
45850570 ACCCGCCCAT
*
45850580 AAGTGAACTCGGACTCAACTCAACGAGCTCGG-GCGTTTGCATC-CAC
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCGTTTGCATCTCAC
* *
45850626 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA-GCGT--TTGCATCTCAC
* *
45850677 ----GAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTTAG-ATCTCAC
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C--GTTTGCATCTCAC
* * * *
45850724 ----GAACTCGGACTCAACTCAACGAGTTCAG-GCATTCGCATC-CAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCGTTTGCATCTCAC
45850766 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGA
45850799 TGCTCAACCA
Statistics
Matches: 146, Mismatches: 13, Indels: 27
0.78 0.07 0.15
Matches are distributed among these distances:
42 5 0.03
43 3 0.02
44 1 0.01
45 1 0.01
46 58 0.40
47 63 0.43
48 5 0.03
50 7 0.05
51 3 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (48 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCGTTTGCATCTCAC
Found at i:45850698 original size:47 final size:47
Alignment explanation
Indices: 45850630--45850749 Score: 222
Period size: 47 Copynumber: 2.6 Consensus size: 47
45850620 ATCCACAAGT
45850630 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* *
45850677 GAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTTAGATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
45850724 GAACTCGGACTCAACTCAACGAGTTC
1 GAACTCGGACTCAACTCAACGAGTTC
45850750 AGGCATTCGC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:45876279 original size:17 final size:17
Alignment explanation
Indices: 45876257--45876294 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
45876247 GCATCATCAC
45876257 GTGCCCATATGAAATTT
1 GTGCCCATATGAAATTT
45876274 GTGCCCATATGAAATTT
1 GTGCCCATATGAAATTT
45876291 GTGC
1 GTGC
45876295 ATACTACGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (17 bp):
GTGCCCATATGAAATTT
Found at i:45879721 original size:40 final size:40
Alignment explanation
Indices: 45879676--45879843 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
45879666 CGGAATATAA
45879676 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
45879716 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
45879756 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
45879796 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
45879836 CCGGATAT
1 CCGGATAT
45879844 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:45887723 original size:40 final size:40
Alignment explanation
Indices: 45887678--45887844 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
45887668 CGGAATATAA
45887678 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
45887718 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
45887758 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
45887798 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
45887837 CCGGATAT
1 CCGGATAT
45887845 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:45893924 original size:3 final size:3
Alignment explanation
Indices: 45893911--45893970 Score: 104
Period size: 3 Copynumber: 20.3 Consensus size: 3
45893901 TTAGGTAAAG
45893911 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
45893958 AAT TAT AAT AAT A
1 AAT AAT AAT AAT A
45893971 GGTAAGTCAT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 2 0.04
3 52 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:45895681 original size:45 final size:45
Alignment explanation
Indices: 45895621--45895708 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
45895611 AAATTATGTA
45895621 ATCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGAC
1 ATCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGAC
* * **
45895666 ATCTGAACTCGTTGAGTTGTGGTCTGAGTTTGTGATATATGTG
1 ATCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTG
45895709 GCACATGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.23, C:0.11, G:0.26, T:0.40
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTGTGGTCTAAGTTCATGATATATGTGAC
Found at i:45901208 original size:2 final size:2
Alignment explanation
Indices: 45901201--45901232 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
45901191 GAATCATGTG
45901201 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
45901233 TATATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:45906433 original size:24 final size:24
Alignment explanation
Indices: 45906401--45906487 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
45906391 AATCTCAAAT
45906401 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
45906425 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
45906449 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
45906473 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
45906488 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:45906453 original size:48 final size:48
Alignment explanation
Indices: 45906401--45906509 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
45906391 AATCTCAAAT
** *
45906401 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
45906449 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
45906497 GCACTATGTGTGC
1 GCACTATGTGTGC
45906510 AACATTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:45906500 original size:24 final size:24
Alignment explanation
Indices: 45906401--45906514 Score: 122
Period size: 24 Copynumber: 4.8 Consensus size: 24
45906391 AATCTCAAAT
** *
45906401 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGACATACTATA
**
45906425 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGACATACTATA
** *
45906449 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGACATACTATA
*
45906473 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ACATACTATA
*
45906497 GCACTATGTGTGCAACAT
1 GCACTATGTGTGCGACAT
45906515 TTGGTTGTTG
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
23 4 0.05
24 73 0.89
25 5 0.06
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCGACATACTATA
Found at i:45920817 original size:21 final size:22
Alignment explanation
Indices: 45920791--45920831 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
45920781 CATTAACGAG
45920791 TCAATGTTGTGACA-TCAACAT
1 TCAATGTTGTGACACTCAACAT
45920812 TCAATGTTGTGACACTCAAC
1 TCAATGTTGTGACACTCAAC
45920832 TTTGAGGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (22 bp):
TCAATGTTGTGACACTCAACAT
Found at i:45921430 original size:22 final size:22
Alignment explanation
Indices: 45921405--45921450 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
45921395 TTTAGGTAGA
45921405 TGTGGTCAAAAGAATAGTCTAC
1 TGTGGTCAAAAGAATAGTCTAC
45921427 TGTGGTCAAAAGAATAGTCTAC
1 TGTGGTCAAAAGAATAGTCTAC
45921449 TG
1 TG
45921451 AGCATCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (22 bp):
TGTGGTCAAAAGAATAGTCTAC
Found at i:45924226 original size:20 final size:20
Alignment explanation
Indices: 45924201--45924240 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
45924191 CACAGGTCCG
45924201 TATCTCTGCCCGTATGGACA
1 TATCTCTGCCCGTATGGACA
45924221 TATCTCTGCCCGTATGGACA
1 TATCTCTGCCCGTATGGACA
45924241 AAATAAGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (20 bp):
TATCTCTGCCCGTATGGACA
Found at i:45925153 original size:25 final size:25
Alignment explanation
Indices: 45925125--45925223 Score: 85
Period size: 25 Copynumber: 4.0 Consensus size: 25
45925115 AAGCTTCTCT
* *
45925125 TGAGCCATATAACAAGAAGCTCATG
1 TGAGCTATATAACAAGAAGCTCATC
** *
45925150 TGAGCTATATGAA-GGGAAGCTTATC
1 TGAGCTATAT-AACAAGAAGCTCATC
* * *
45925175 CGAGCTATATAACAGGAAGCTTATC
1 TGAGCTATATAACAAGAAGCTCATC
*
45925200 TGGGCTATATAAC-AGAAAGCTCAT
1 TGAGCTATATAACAAG-AAGCTCAT
45925224 AAGAGCCATA
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
24 3 0.05
25 55 0.92
26 2 0.03
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.24
Consensus pattern (25 bp):
TGAGCTATATAACAAGAAGCTCATC
Found at i:45925207 original size:50 final size:51
Alignment explanation
Indices: 45925112--45925209 Score: 126
Period size: 50 Copynumber: 1.9 Consensus size: 51
45925102 GCACATAATC
* * *
45925112 GGGAAGCTTCTCTTGAGCCATATAACAAGAAGCTCATGTGAGCTATATGAA
1 GGGAAGCTTATCTCGAGCCATATAACAAGAAGCTCATCTGAGCTATATGAA
* * * *
45925163 GGGAAGCTTATC-CGAGCTATATAACAGGAAGCTTATCTGGGCTATAT
1 GGGAAGCTTATCTCGAGCCATATAACAAGAAGCTCATCTGAGCTATAT
45925210 AACAGAAAGC
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
50 29 0.73
51 11 0.28
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (51 bp):
GGGAAGCTTATCTCGAGCCATATAACAAGAAGCTCATCTGAGCTATATGAA
Found at i:45925220 original size:50 final size:50
Alignment explanation
Indices: 45925126--45925234 Score: 112
Period size: 50 Copynumber: 2.2 Consensus size: 50
45925116 AGCTTCTCTT
* * *
45925126 GAGCCATATAACAAGAAGCTCATGTGAGCTATATGAAGGGAAGCTTATCC
1 GAGCCATATAACAAGAAGCTCATCTGAGCTATATGAAAGAAAGCTTATCC
* * * * * **
45925176 GAGCTATATAACAGGAAGCTTATCTGGGCTATAT-AACAGAAAGCTCATAA
1 GAGCCATATAACAAGAAGCTCATCTGAGCTATATGAA-AGAAAGCTTATCC
45925226 GAGCCATAT
1 GAGCCATAT
45925235 TTAGAAAGCT
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
49 2 0.04
50 45 0.96
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (50 bp):
GAGCCATATAACAAGAAGCTCATCTGAGCTATATGAAAGAAAGCTTATCC
Found at i:45925382 original size:26 final size:26
Alignment explanation
Indices: 45925353--45925420 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
45925343 CGAAGAGTCA
* *
45925353 TTAATTAGGAAGCTCATAAAGAGCCT
1 TTAATCAGGAAGCTCACAAAGAGCCT
* *
45925379 TTAATCGGGAATCTCACAAAGAGCCAT
1 TTAATCAGGAAGCTCACAAAGAGCC-T
* *
45925406 ATAA-CAGGACGCTCA
1 TTAATCAGGAAGCTCA
45925421 TAAGATCTGC
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
26 29 0.88
27 4 0.12
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (26 bp):
TTAATCAGGAAGCTCACAAAGAGCCT
Found at i:45925889 original size:21 final size:21
Alignment explanation
Indices: 45925865--45925906 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
45925855 TAAATTTATC
*
45925865 TCAATTTAATACAATTCATAT
1 TCAATTCAATACAATTCATAT
*
45925886 TCAATTCAATTCAATTCATAT
1 TCAATTCAATACAATTCATAT
45925907 CCTAGGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (21 bp):
TCAATTCAATACAATTCATAT
Found at i:45925894 original size:5 final size:5
Alignment explanation
Indices: 45925865--45925903 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
45925855 TAAATTTATC
* *
45925865 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
45925904 TATCCTAGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:45927417 original size:17 final size:18
Alignment explanation
Indices: 45927392--45927429 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
45927382 TACATTTTAT
*
45927392 TAATTATAAATTAT-ATA
1 TAATGATAAATTATAATA
45927409 TAATGATAAATTATAATA
1 TAATGATAAATTATAATA
45927427 TAA
1 TAA
45927430 ATAATATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (18 bp):
TAATGATAAATTATAATA
Found at i:45928501 original size:20 final size:20
Alignment explanation
Indices: 45928476--45928515 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
45928466 AGTTAGAGGG
45928476 AGAGAGATGAAAGTCATCAA
1 AGAGAGATGAAAGTCATCAA
45928496 AGAGAGATGAAAGTCATCAA
1 AGAGAGATGAAAGTCATCAA
45928516 CTTCCCTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.25, T:0.15
Consensus pattern (20 bp):
AGAGAGATGAAAGTCATCAA
Found at i:45930598 original size:47 final size:47
Alignment explanation
Indices: 45930529--45930859 Score: 441
Period size: 47 Copynumber: 7.3 Consensus size: 47
45930519 CCCTTCGGGA
* * * * *
45930529 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTAGGT
1 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
* *
45930576 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
45930623 CTTATCACATATATACACTTCCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
*
45930670 CTTATCACATATATATATTTTCACA-T--T--CA-T---C--TCGGC
1 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
*
45930706 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
* *
45930753 CTTATCACATATATATACTTTCACATTCATCATATTGGCCACTCGGC
1 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
*
45930800 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
45930847 CTTATCACATATA
1 CTTATCACATATA
45930860 CATATCTTGT
Statistics
Matches: 254, Mismatches: 19, Indels: 22
0.86 0.06 0.07
Matches are distributed among these distances:
36 30 0.12
37 1 0.00
38 1 0.00
39 1 0.00
41 3 0.01
42 2 0.01
44 1 0.00
45 1 0.00
46 1 0.00
47 213 0.84
ACGTcount: A:0.27, C:0.28, G:0.08, T:0.37
Consensus pattern (47 bp):
CTTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:45930711 original size:36 final size:36
Alignment explanation
Indices: 45930664--45930736 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
45930654 ACGTTGGCCA
45930664 CTCGGCCTTATCACATATATATATTTTCACATTCAT
1 CTCGGCCTTATCACATATATATATTTTCACATTCAT
45930700 CTCGGCCTTATCACATATATATATTTTCACATTCAT
1 CTCGGCCTTATCACATATATATATTTTCACATTCAT
45930736 C
1 C
45930737 ACATTGGCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.27, C:0.26, G:0.05, T:0.41
Consensus pattern (36 bp):
CTCGGCCTTATCACATATATATATTTTCACATTCAT
Found at i:45930734 original size:130 final size:130
Alignment explanation
Indices: 45930576--45930830 Score: 447
Period size: 130 Copynumber: 2.0 Consensus size: 130
45930566 GCCATTAGGT
*
45930576 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
45930641 TTCCACATTCATCACGTTGGCCACTCGGCCTTATCACATATATATATTTTCACATTCATCTCGGC
66 TTCCACATTCATCACATTGGCCACTCGGCCTTATCACATATATATATTTTCACATTCATCTCGGC
* * *
45930706 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* *
45930771 TTTCACATTCATCATATTGGCCACTCGGCCTTATCACATATATATATTTTCACATTCATC
66 TTCCACATTCATCACATTGGCCACTCGGCCTTATCACATATATATATTTTCACATTCATC
45930831 ACATTGGCCA
Statistics
Matches: 118, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 118 1.00
ACGTcount: A:0.27, C:0.28, G:0.07, T:0.37
Consensus pattern (130 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTCCACATTCATCACATTGGCCACTCGGCCTTATCACATATATATATTTTCACATTCATCTCGGC
Found at i:45930827 original size:177 final size:177
Alignment explanation
Indices: 45930529--45930864 Score: 528
Period size: 177 Copynumber: 1.9 Consensus size: 177
45930519 CCCTTCGGGA
* * *
45930529 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTAGGTCTTATCTCATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* *
45930594 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTCCACATTCATCACGTT
66 TTTCACATTCATCACATTGGCCACTCGGCCTTATCACATATATACACTTCCACATTCATCACATT
*
45930659 GGCCACTCGGCCTTATCACATATATATATTTTCACATTCATCTCGGC
131 GGCCACTCGGCCTTATCACATATACATATTTTCACATTCATCTCGGC
* * * * *
45930706 CTTATCACATATATATATTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* * * *
45930771 TTTCACATTCATCATATTGGCCACTCGGCCTTATCACATATATATATTTTCACATTCATCACATT
66 TTTCACATTCATCACATTGGCCACTCGGCCTTATCACATATATACACTTCCACATTCATCACATT
*
45930836 GGCCATTCGGCCTTATCACATATACATAT
131 GGCCACTCGGCCTTATCACATATACATAT
45930865 CTTGTACATC
Statistics
Matches: 143, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
177 143 1.00
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.37
Consensus pattern (177 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCACTCGGCCTTATCACATATATACACTTCCACATTCATCACATT
GGCCACTCGGCCTTATCACATATACATATTTTCACATTCATCTCGGC
Found at i:45935815 original size:40 final size:40
Alignment explanation
Indices: 45935770--45935936 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
45935760 CGGAATATAA
45935770 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * ** *
45935810 CCGGATAGAATAACTCGCATGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * *
45935850 CCGGATATAGCCATTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
45935890 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
45935929 CCGGATAT
1 CCGGATAT
45935937 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 3
0.78 0.19 0.02
Matches are distributed among these distances:
39 14 0.14
40 87 0.86
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:45935920 original size:80 final size:79
Alignment explanation
Indices: 45935786--45935936 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 79
45935776 ATAATCACGT
*
45935786 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCATGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCATGAATGCCTTCGGG-CTTAGCC
45935851 CGGATATAGCCATTA
65 CGGATATAGCCATTA
* * ** *
45935866 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCAT-AATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCATGAA-TGCCTTCGGGCTTAGC
45935929 CCGGATAT
64 CCGGATAT
45935937 CATTCAATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 17 0.27
80 46 0.73
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCATGAATGCCTTCGGGCTTAGCCC
GGATATAGCCATTA
Found at i:45942843 original size:40 final size:40
Alignment explanation
Indices: 45942798--45942964 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
45942788 CGGAATATAA
45942798 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
45942838 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
45942878 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
45942918 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
45942957 CCGGATAT
1 CCGGATAT
45942965 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:45942948 original size:80 final size:79
Alignment explanation
Indices: 45942814--45942964 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
45942804 ATAATCACGT
*
45942814 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
45942879 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
45942894 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
45942957 CCGGATAT
64 CCGGATAT
45942965 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:45951970 original size:50 final size:50
Alignment explanation
Indices: 45951879--45952278 Score: 563
Period size: 50 Copynumber: 8.0 Consensus size: 50
45951869 TTTGACTACA
** *
45951879 TAGGTAAGTACATATATGATG-TATATTGAACCTTGTGTATTCGGCCATG
1 TAGGTAAGTATTTATGTGATGATATATTGAACCTTGTGTATTCGGCCATG
* *
45951928 TAGGTAAGTATTTATGTGATGATATATTGAAGCTTGTTTATTCGGCCATG
1 TAGGTAAGTATTTATGTGATGATATATTGAACCTTGTGTATTCGGCCATG
* *
45951978 TAGGTAAGTATTTATGTGATGATAAATTGAACCTTCTGTATTCGGCCATG
1 TAGGTAAGTATTTATGTGATGATATATTGAACCTTGTGTATTCGGCCATG
*
45952028 TAGGTAAGTATTTATGTGATGATATATTGAACCTTCTGTATTCGGCCATG
1 TAGGTAAGTATTTATGTGATGATATATTGAACCTTGTGTATTCGGCCATG
*
45952078 TAGGTAAGTATTTATGTTGTGATGATATATTGAACCTTCTGTATTCGGCCATG
1 TAGGTAAGTATTTA---TGTGATGATATATTGAACCTTGTGTATTCGGCCATG
45952131 TAGGTAAGTATTTATGTGATGATATATTGAACCTTGTGTATTCGGCCATG
1 TAGGTAAGTATTTATGTGATGATATATTGAACCTTGTGTATTCGGCCATG
* * * * *
45952181 TAGGGAAGTATTCATGTGATGATATATTGAACCTTGTATATTTGGCCATA
1 TAGGTAAGTATTTATGTGATGATATATTGAACCTTGTGTATTCGGCCATG
* * * **
45952231 T-GAGTATGTATTTATGTCATGATATACTTG-ATCTTGCATATTCGGCCA
1 TAG-GTAAGTATTTATGTGATGATATA-TTGAACCTTGTGTATTCGGCCA
45952279 AATGAATGGT
Statistics
Matches: 322, Mismatches: 23, Indels: 11
0.90 0.06 0.03
Matches are distributed among these distances:
49 19 0.06
50 250 0.78
51 3 0.01
53 50 0.16
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (50 bp):
TAGGTAAGTATTTATGTGATGATATATTGAACCTTGTGTATTCGGCCATG
Found at i:45952145 original size:153 final size:153
Alignment explanation
Indices: 45951879--45952247 Score: 559
Period size: 153 Copynumber: 2.4 Consensus size: 153
45951869 TTTGACTACA
** *
45951879 TAGGTAAGTACATATATGATG-TATATTGAACCTTGTGTATTCGGCCATGTAGGTAAGTATTTA-
1 TAGGTAAGTATTTATGTGATGATATATTGAACCTTGTGTATTCGGCCATGTAGGTAAGTATTTAT
* * *
45951942 --TGTGATGATATATTGAAGCTTGTTTATTCGGCCATGTAGGTAAGTATTTATGTGATGATAAAT
66 GTTGTGATGATATATTGAACCTTCTGTATTCGGCCATGTAGGTAAGTATTTATGTGATGATAAAT
45952005 TGAACCTTCTGTATTCGGCCATG
131 TGAACCTTCTGTATTCGGCCATG
*
45952028 TAGGTAAGTATTTATGTGATGATATATTGAACCTTCTGTATTCGGCCATGTAGGTAAGTATTTAT
1 TAGGTAAGTATTTATGTGATGATATATTGAACCTTGTGTATTCGGCCATGTAGGTAAGTATTTAT
*
45952093 GTTGTGATGATATATTGAACCTTCTGTATTCGGCCATGTAGGTAAGTATTTATGTGATGATATAT
66 GTTGTGATGATATATTGAACCTTCTGTATTCGGCCATGTAGGTAAGTATTTATGTGATGATAAAT
*
45952158 TGAACCTTGTGTATTCGGCCATG
131 TGAACCTTCTGTATTCGGCCATG
* * * * * *
45952181 TAGGGAAGTATTCATGTGATGATATATTGAACCTTGTATATTTGGCCATAT-GAGTATGTATTTA
1 TAGGTAAGTATTTATGTGATGATATATTGAACCTTGTGTATTCGGCCATGTAG-GTAAGTATTTA
45952245 TGT
65 TGT
45952248 CATGATATAC
Statistics
Matches: 199, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
149 18 0.09
150 41 0.21
152 1 0.01
153 139 0.70
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (153 bp):
TAGGTAAGTATTTATGTGATGATATATTGAACCTTGTGTATTCGGCCATGTAGGTAAGTATTTAT
GTTGTGATGATATATTGAACCTTCTGTATTCGGCCATGTAGGTAAGTATTTATGTGATGATAAAT
TGAACCTTCTGTATTCGGCCATG
Found at i:45952175 original size:203 final size:203
Alignment explanation
Indices: 45951895--45952261 Score: 594
Period size: 203 Copynumber: 1.8 Consensus size: 203
45951885 AGTACATATA
* *
45951895 TGATGTATATTGAACCTTGTGTATTCGGCCATGTAGGTAAGTATTTATGTGATGATATATTGAAG
1 TGATGTATATTGAACCTTCTGTATTCGGCCATGTAGGTAAGTATTTATGTGATGATATATTGAAC
* * * *
45951960 CTTGTTTATTCGGCCATGTAGGTAAGTATTTATGTGATGATAAATTGAACCTTCTGTATTCGGCC
66 CTTGTGTATTCGGCCATGTAGGGAAGTATTCATGTGATGATAAATTGAACCTTCTATATTCGGCC
* *
45952025 ATGT-AGGTAAGTATTTATGTGATGATATA-TTGAACCTTCTGTATTCGGCCATGTAGGTAAGTA
131 ATATGA-GTAAGTATTTATGTCATGATATACTTGAACCTTCTGTATTCGGCCATGTAGGTAAGTA
45952088 TTTATGTTG
195 TTTATGTTG
45952097 TGATGATATATTGAACCTTCTGTATTCGGCCATGTAGGTAAGTATTTATGTGATGATATATTGAA
1 TGATG-TATATTGAACCTTCTGTATTCGGCCATGTAGGTAAGTATTTATGTGATGATATATTGAA
* * *
45952162 CCTTGTGTATTCGGCCATGTAGGGAAGTATTCATGTGATGATATATTGAACCTTGTATATTTGGC
65 CCTTGTGTATTCGGCCATGTAGGGAAGTATTCATGTGATGATAAATTGAACCTTCTATATTCGGC
*
45952227 CATATGAGTATGTATTTATGTCATGATATACTTGA
130 CATATGAGTAAGTATTTATGTCATGATATACTTGA
45952262 TCTTGCATAT
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
202 5 0.03
203 140 0.93
204 5 0.03
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (203 bp):
TGATGTATATTGAACCTTCTGTATTCGGCCATGTAGGTAAGTATTTATGTGATGATATATTGAAC
CTTGTGTATTCGGCCATGTAGGGAAGTATTCATGTGATGATAAATTGAACCTTCTATATTCGGCC
ATATGAGTAAGTATTTATGTCATGATATACTTGAACCTTCTGTATTCGGCCATGTAGGTAAGTAT
TTATGTTG
Found at i:45958355 original size:10 final size:10
Alignment explanation
Indices: 45958336--45958383 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
45958326 GAATCTGTCG
*
45958336 AAAATAAATC
1 AAAATTAATC
45958346 AAAATTAATC
1 AAAATTAATC
*
45958356 AAAATTTAATAT
1 AAAA-TTAAT-C
*
45958368 AAAATTAATT
1 AAAATTAATC
45958378 AAAATT
1 AAAATT
45958384 CAACATGTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 20 0.59
11 10 0.29
12 4 0.12
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTAATC
Found at i:45961831 original size:77 final size:77
Alignment explanation
Indices: 45961738--45961896 Score: 203
Period size: 77 Copynumber: 2.1 Consensus size: 77
45961728 ACTGGGAGCA
* * * * * * *
45961738 AGCTGTTGGCTGTTGGCGCACGC-GAGTTGGAGCTAGAAGTAGGCCTGGCATGTGTGACAGTAGC
1 AGCTGTTGGCTATTGGCACACGCGGA-CTAGAGCTAGAAGCAGGCCTGGCATGTGCGACAGTAAC
45961802 AGCGTACATATGG
65 AGCGTACATATGG
* *
45961815 AGCTGTTGGCTATTGGCACACGCGGACTAGAGCTAGAAGCAGGCCTGGCGTGTGCGGCAGTAACA
1 AGCTGTTGGCTATTGGCACACGCGGACTAGAGCTAGAAGCAGGCCTGGCATGTGCGACAGTAACA
* *
45961880 GCGTGCATGTGG
66 GCGTACATATGG
45961892 AGCTG
1 AGCTG
45961897 CTAGCCGAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
77 68 0.97
78 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.38, T:0.21
Consensus pattern (77 bp):
AGCTGTTGGCTATTGGCACACGCGGACTAGAGCTAGAAGCAGGCCTGGCATGTGCGACAGTAACA
GCGTACATATGG
Found at i:45967890 original size:40 final size:39
Alignment explanation
Indices: 45967778--45967930 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 39
45967768 GGATATAGCG
* * * * ***
45967778 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTC-GGACTTAGCCCGGATATGGGA
* * *
45967818 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTC-GGACTTAGCCCGGATATGGGA
* **
45967858 ACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGA-CTTAGCCCGGATATGGGA
*
45967898 ACTTAGCACAAA-GCCTTCGAGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCG-GACTTAGCCCGGA
45967931 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 79 0.86
41 10 0.11
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGACTTAGCCCGGATATGGGA
Found at i:45978564 original size:43 final size:42
Alignment explanation
Indices: 45978517--45978636 Score: 154
Period size: 43 Copynumber: 2.8 Consensus size: 42
45978507 AATGCCAACA
*
45978517 TCCCAGACGTGGTCTTACATGTAATCACATATCGATGCC-ACTG
1 TCCCAGACGTGGTCTTACACG-AATCACATATCGATGCCGA-TG
*
45978560 TCCCAGACAG-GGTCTTACACGAATCACATATACAATGCCGATG
1 TCCCAGAC-GTGGTCTTACACGAATCACATAT-CGATGCCGATG
*
45978603 TCCCAGACATGGTCTTACACGCAATCACATATCG
1 TCCCAGACGTGGTCTTACACG-AATCACATATCG
45978637 TAAATCCTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
42 10 0.15
43 46 0.68
44 12 0.18
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (42 bp):
TCCCAGACGTGGTCTTACACGAATCACATATCGATGCCGATG
Found at i:45982649 original size:67 final size:67
Alignment explanation
Indices: 45982575--45982701 Score: 236
Period size: 67 Copynumber: 1.9 Consensus size: 67
45982565 GTCTATCTAG
* *
45982575 ATCTATACGAGTAAATTTAACATTAATTTATCATTTTTTACATTCATATGGACTAAATTTAACAT
1 ATCTATACAAGTAAATTTAACATTAATTTATCATATTTTACATTCATATGGACTAAATTTAACAT
45982640 TA
66 TA
45982642 ATCTATACAAGTAAATTTAACATTAATTTATCATATTTTACATTCATATGGACTAAATTT
1 ATCTATACAAGTAAATTTAACATTAATTTATCATATTTTACATTCATATGGACTAAATTT
45982702 TCATCCTAGG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (67 bp):
ATCTATACAAGTAAATTTAACATTAATTTATCATATTTTACATTCATATGGACTAAATTTAACAT
TA
Found at i:45986116 original size:37 final size:37
Alignment explanation
Indices: 45986066--45986136 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
45986056 AGACATGCTA
45986066 ATATTATAGTTTAATTTATAACTTCTTCATAAATAGC
1 ATATTATAGTTTAATTTATAACTTCTTCATAAATAGC
45986103 ATATTATAGTTTAATTTATAACTTCTTCATAAAT
1 ATATTATAGTTTAATTTATAACTTCTTCATAAAT
45986137 TATATATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (37 bp):
ATATTATAGTTTAATTTATAACTTCTTCATAAATAGC
Found at i:45986452 original size:18 final size:18
Alignment explanation
Indices: 45986416--45986467 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
45986406 TTAAAAAAAA
*
45986416 ATTATTAAATGAA-AATTT
1 ATTATTAAAT-AATATTTT
45986434 ATTATTAAATAATATTTT
1 ATTATTAAATAATATTTT
*
45986452 AATATTATAATAATAT
1 ATTATTA-AATAATAT
45986468 GTAATAACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 2 0.07
18 20 0.67
19 8 0.27
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
ATTATTAAATAATATTTT
Found at i:45986519 original size:19 final size:21
Alignment explanation
Indices: 45986495--45986550 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 21
45986485 AATAGTTATA
*
45986495 AATAACCTAT-TTAA-ATCTT
1 AATAACATATATTAATATCTT
45986514 AATAACATATATTAATATCTT
1 AATAACATATATTAATATCTT
* *
45986535 AAAAATCATTTATTAA
1 AATAA-CATATATTAA
45986551 AATAATATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.29
20 4 0.13
21 9 0.29
22 9 0.29
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (21 bp):
AATAACATATATTAATATCTT
Found at i:45986533 original size:21 final size:20
Alignment explanation
Indices: 45986495--45986551 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
45986485 AATAGTTATA
*
45986495 AATAACCTAT-TTAAATCTT
1 AATAACATATATTAAATCTT
45986514 AATAACATATATTAATATCTT
1 AATAACATATATTAA-ATCTT
* *
45986535 AAAAATCATTTATTAAA
1 AATAA-CATATATTAAA
45986552 ATAATATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 9 0.28
20 4 0.12
21 10 0.31
22 9 0.28
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (20 bp):
AATAACATATATTAAATCTT
Found at i:45989782 original size:3 final size:3
Alignment explanation
Indices: 45989774--45989803 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
45989764 TATAAATTGA
45989774 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
45989804 TTAACTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:45995580 original size:22 final size:21
Alignment explanation
Indices: 45995552--45995602 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
45995542 TAGGTAAGAC
45995552 ATTTTATGGGAATAAGAAAAT
1 ATTTTATGGGAATAAGAAAAT
*** *
45995573 AATTTTATATTAATTAGAAAAT
1 -ATTTTATGGGAATAAGAAAAT
45995595 ATTTTATG
1 ATTTTATG
45995603 TTAACCATCC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (21 bp):
ATTTTATGGGAATAAGAAAAT
Found at i:45995600 original size:21 final size:22
Alignment explanation
Indices: 45995566--45995606 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
45995556 TATGGGAATA
45995566 AGAAAATAATTTTATATTAATT
1 AGAAAATAATTTTATATTAATT
*
45995588 AGAAAAT-ATTTTATGTTAA
1 AGAAAATAATTTTATATTAA
45995607 CCATCCTATT
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:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (22 bp):
AGAAAATAATTTTATATTAATT
Found at i:45997044 original size:17 final size:17
Alignment explanation
Indices: 45997019--45997061 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
45997009 GAAAATTCTA
*
45997019 AAATTTATAAAAAAAAT
1 AAATATATAAAAAAAAT
* * *
45997036 TAATATATATATAAAAT
1 AAATATATAAAAAAAAT
45997053 AAATATATA
1 AAATATATA
45997062 TAATTGTTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATATATAAAAAAAAT
Found at i:45997062 original size:17 final size:17
Alignment explanation
Indices: 45997031--45997063 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
45997021 ATTTATAAAA
*
45997031 AAAATTAATATATATAT
1 AAAATAAATATATATAT
45997048 AAAATAAATATATATA
1 AAAATAAATATATATA
45997064 ATTGTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATAAATATATATAT
Found at i:46000392 original size:2 final size:2
Alignment explanation
Indices: 46000377--46000408 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
46000367 GTAAATTTTA
46000377 AT AT -T AT AT A- 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
46000409 GAATTGTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46000595 original size:22 final size:23
Alignment explanation
Indices: 46000570--46000615 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
46000560 CAACCAAATC
46000570 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
46000592 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
46000615 A
1 A
46000616 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:46000621 original size:23 final size:23
Alignment explanation
Indices: 46000577--46000621 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
46000567 ATCAATTCAA
*
46000577 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
46000600 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
46000622 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:46003750 original size:2 final size:2
Alignment explanation
Indices: 46003745--46003779 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
46003735 TAGTAATGGT
*
46003745 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
46003780 GTATGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:46003784 original size:12 final size:12
Alignment explanation
Indices: 46003749--46003787 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
46003739 AATGGTTATA
*
46003749 TATATATATATA
1 TATATATATATG
46003761 TATATATATATG
1 TATATATATATG
*
46003773 TATATATGTATG
1 TATATATATATG
46003785 TAT
1 TAT
46003788 TAATAGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (12 bp):
TATATATATATG
Found at i:46005508 original size:25 final size:24
Alignment explanation
Indices: 46005474--46005523 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 24
46005464 TATAACACTA
46005474 ATTATCATATTATTAAATTAATTT
1 ATTATCATATTATTAAATTAATTT
*
46005498 ATTATACATATTATTAATTTAATTT
1 ATTAT-CATATTATTAAATTAATTT
46005523 A
1 A
46005524 AATTTTATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (24 bp):
ATTATCATATTATTAAATTAATTT
Found at i:46005531 original size:20 final size:20
Alignment explanation
Indices: 46005490--46005531 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
46005480 ATATTATTAA
*
46005490 ATTAATTTATTATACATATT
1 ATTAATTTATTATAAATATT
*
46005510 ATTAATTTAATT-TAAATTTT
1 ATTAATTT-ATTATAAATATT
46005530 AT
1 AT
46005532 AGATTTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTAATTTATTATAAATATT
Found at i:46012940 original size:22 final size:20
Alignment explanation
Indices: 46012900--46012948 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
46012890 TAATTTAAAA
46012900 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
* *
46012920 TATATAAATTTATTAATATA
1 TATAAAAATTTATTAATATG
*
46012940 TGTAAAAAT
1 TATAAAAAT
46012949 AACTTTTACG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:46013061 original size:20 final size:20
Alignment explanation
Indices: 46013036--46013075 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46013026 AAATATTTTC
46013036 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
* *
46013056 AGTAAATCTTTTTTCAGAAA
1 AGTAAATCATTTTCCAGAAA
46013076 TCATTTTCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (20 bp):
AGTAAATCATTTTCCAGAAA
Found at i:46025933 original size:22 final size:23
Alignment explanation
Indices: 46025893--46025956 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
46025883 AATGGCAGCG
* *
46025893 AAACAACATAATAAACAACTA-CA
1 AAACAACACAAAAAACAAC-ACCA
*
46025916 AAACAACA-ATAAAACAACACCA
1 AAACAACACAAAAAACAACACCA
*
46025938 AATCAACACAAAAAACAAC
1 AAACAACACAAAAAACAAC
46025957 CTGCAAAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 17 0.49
23 17 0.49
ACGTcount: A:0.67, C:0.25, G:0.00, T:0.08
Consensus pattern (23 bp):
AAACAACACAAAAAACAACACCA
Found at i:46033907 original size:22 final size:21
Alignment explanation
Indices: 46033859--46033924 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
46033849 GACTCACCAT
* *
46033859 AGCTCGTATGAGCTTATCGTTTC
1 AGCTC-TACGAGCTTACCG-TTC
46033882 AGCTCTACAGAGCTTACCGTTC
1 AGCTCTAC-GAGCTTACCGTTC
*
46033904 AGCTCTTCGTAGCTTACCGTT
1 AGCTCTACG-AGCTTACCGTT
46033925 TATCAGCTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 1 0.03
22 23 0.61
23 14 0.37
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (21 bp):
AGCTCTACGAGCTTACCGTTC
Found at i:46041591 original size:22 final size:21
Alignment explanation
Indices: 46041542--46041593 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 21
46041532 GGATTCACCA
*
46041542 TAGCTCGTATGAGCTTACCGTT
1 TAGCTC-TATGAGCTTACCATT
46041564 TCAGCTCTATGGAGCTTACCATT
1 T-AGCTCTAT-GAGCTTACCATT
46041587 TAGCTCT
1 TAGCTCT
46041594 TCATAGTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 10 0.37
23 17 0.63
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (21 bp):
TAGCTCTATGAGCTTACCATT
Found at i:46045835 original size:39 final size:41
Alignment explanation
Indices: 46045753--46045835 Score: 98
Period size: 39 Copynumber: 2.1 Consensus size: 41
46045743 TATGCATACA
* ** *
46045753 GTATTTGAGATGGGCTAAGGCCCTAATTTATATCTGAGGCT
1 GTATCTGAGATGGGCTAAGGCCCTAAACTATATCTGAAGCT
* *
46045794 GTATCTGA-ATGGGCTAAGG-CCTAAACTGTATCTGAATCT
1 GTATCTGAGATGGGCTAAGGCCCTAAACTATATCTGAAGCT
46045833 GTA
1 GTA
46045836 ATGGGCTTAG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
39 18 0.50
40 11 0.31
41 7 0.19
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (41 bp):
GTATCTGAGATGGGCTAAGGCCCTAAACTATATCTGAAGCT
Found at i:46047106 original size:26 final size:26
Alignment explanation
Indices: 46047077--46047128 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
46047067 TAATTCCGGG
46047077 GAATGTTGTCGAAGTTCATTATTTTA
1 GAATGTTGTCGAAGTTCATTATTTTA
46047103 GAATGTTGTCGAAGTTCATTATTTTA
1 GAATGTTGTCGAAGTTCATTATTTTA
46047129 TCTTCTTGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.46
Consensus pattern (26 bp):
GAATGTTGTCGAAGTTCATTATTTTA
Found at i:46054850 original size:2 final size:2
Alignment explanation
Indices: 46054786--46054835 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
46054776 TTAATTAGTG
* *
46054786 AT AT AT AC AA AT A- 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
46054827 AT AT AT AT A
1 AT AT AT AT A
46054836 AAGATACTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:46054943 original size:30 final size:29
Alignment explanation
Indices: 46054884--46054946 Score: 72
Period size: 32 Copynumber: 2.1 Consensus size: 29
46054874 CATACAATTT
* * *
46054884 TAAATATATTAAAGGAAACAAATTATATA
1 TAAATAAATTAAAAGAAAAAAATTATATA
46054913 TAAATAAATTTAAAAGAAAAAAATATTATATA
1 TAAATAAA-TTAAAAG-AAAAAA-ATTATATA
46054945 TA
1 TA
46054947 TATATATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 7 0.25
30 6 0.21
31 5 0.18
32 10 0.36
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (29 bp):
TAAATAAATTAAAAGAAAAAAATTATATA
Found at i:46067134 original size:30 final size:30
Alignment explanation
Indices: 46067076--46067148 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
46067066 TTTGTTAATG
* * **
46067076 AATAAGTAATTTAATATATTTATTTTTAAA
1 AATAAATAATTTAAAATATTTAAATTTAAA
* *
46067106 TAAT-ATTAATTTAAAATTTTTAAATTTAAA
1 -AATAAATAATTTAAAATATTTAAATTTAAA
46067136 AATAAATAATTTA
1 AATAAATAATTTA
46067149 TTTCAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
29 3 0.09
30 29 0.83
31 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (30 bp):
AATAAATAATTTAAAATATTTAAATTTAAA
Found at i:46067473 original size:33 final size:33
Alignment explanation
Indices: 46067425--46067502 Score: 129
Period size: 33 Copynumber: 2.4 Consensus size: 33
46067415 GATGTTCATT
* *
46067425 GATAAATAATGTGCCTCGTTAAAACCTTACTAA
1 GATAAAAAATCTGCCTCGTTAAAACCTTACTAA
46067458 GATAAAAAATCTGCCTCGTTAAAACCTTACTAA
1 GATAAAAAATCTGCCTCGTTAAAACCTTACTAA
*
46067491 GAAAAAAAATCT
1 GATAAAAAATCT
46067503 TAGTGAAGGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.27
Consensus pattern (33 bp):
GATAAAAAATCTGCCTCGTTAAAACCTTACTAA
Found at i:46070347 original size:25 final size:26
Alignment explanation
Indices: 46070319--46070368 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
46070309 CAACAAAACT
* *
46070319 AAAATCTAACCTA-AAAAGAAAAGAG
1 AAAACCTAAACTAGAAAAGAAAAGAG
*
46070344 AAAACCTAAACTAGAAATGAAAAGA
1 AAAACCTAAACTAGAAAAGAAAAGA
46070369 ACAAAAAAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.64, C:0.12, G:0.12, T:0.12
Consensus pattern (26 bp):
AAAACCTAAACTAGAAAAGAAAAGAG
Found at i:46077370 original size:27 final size:25
Alignment explanation
Indices: 46077327--46077384 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 25
46077317 AAATTATAAA
*
46077327 AAAATTTAATATTTATTTTAAAATAT-
1 AAAA-TTAATATTTATTATAAAA-ATC
46077353 AAAATTAATATTAATATTATAAAAATC
1 AAAATTAATATT--TATTATAAAAATC
46077380 AAAAT
1 AAAAT
46077385 ATAAGAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 8 0.29
26 6 0.21
27 14 0.50
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
AAAATTAATATTTATTATAAAAATC
Found at i:46079760 original size:23 final size:23
Alignment explanation
Indices: 46079734--46079779 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
46079724 ATATATGAAA
*
46079734 CAATTTTAGAAACT-TTATTTTTG
1 CAATTATA-AAACTATTATTTTTG
*
46079757 CAATTATAAAATTATTATTTTTG
1 CAATTATAAAACTATTATTTTTG
46079780 AATATTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.52
Consensus pattern (23 bp):
CAATTATAAAACTATTATTTTTG
Found at i:46080833 original size:129 final size:129
Alignment explanation
Indices: 46080596--46080847 Score: 337
Period size: 129 Copynumber: 2.0 Consensus size: 129
46080586 ATTTATTTAA
** ** *
46080596 AAATTCTTTAAAACGAAGGCGGTGTTCGATATTTGGCAATTCGCGGAATCGTGCTCTAACATGCT
1 AAATTCTCCAAAACGAAGGCAATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACATGCT
* *
46080661 GGGTTGCAATTCCTCGTTTGCTCAAAATAATTGAATGTCCCTTTAGAATTTCATTCATGCATTT
66 GGGTTGCAATTCCTCGTTTGCTCAAAATAATCGAATGTCCCTTTAGAATTTCACTCATGCATTT
* * * *
46080725 AAATTCTCCAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCT
1 AAATTCTCCAAAACGAAGGCAATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACATGCT
* * * *
46080790 GGGTTGTAATTTCCT-GTTTGTTCAAAATGATCGAA-GATTCCTTTAGAATTTCACTCAT
66 GGGTTGCAA-TTCCTCGTTTGCTCAAAATAATCGAATG-TCCCTTTAGAATTTCACTCAT
46080848 ATTCTCTAAA
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
128 1 0.01
129 100 0.94
130 5 0.05
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (129 bp):
AAATTCTCCAAAACGAAGGCAATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTAACATGCT
GGGTTGCAATTCCTCGTTTGCTCAAAATAATCGAATGTCCCTTTAGAATTTCACTCATGCATTT
Found at i:46100834 original size:7 final size:6
Alignment explanation
Indices: 46100824--46100854 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
46100814 AAAATTATAC
46100824 AAAAAT AAAAAT AAAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT -AAAAAT AAAAAT AAAAAT
46100855 GGAGAGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:46100840 original size:13 final size:13
Alignment explanation
Indices: 46100824--46100853 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
46100814 AAAATTATAC
46100824 AAAAATAAAAATA
1 AAAAATAAAAATA
46100837 AAAAATAAAAATA
1 AAAAATAAAAATA
46100850 AAAA
1 AAAA
46100854 TGGAGAGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:46108456 original size:28 final size:28
Alignment explanation
Indices: 46108424--46108483 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
46108414 ACAAATACAA
* * *
46108424 GTTCATAATTAGGGCTT-GCACATGTAGG
1 GTTCACAACTAGGG-TTCGCACATGTAAG
*
46108452 GTTCACACCTAGGGTTCGCACATGTAAG
1 GTTCACAACTAGGGTTCGCACATGTAAG
46108480 GTTC
1 GTTC
46108484 GCGTATGCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (28 bp):
GTTCACAACTAGGGTTCGCACATGTAAG
Found at i:46108548 original size:21 final size:20
Alignment explanation
Indices: 46108522--46108575 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
46108512 GACATATATA
46108522 AGGTTCGCATAAAAAGCACAT
1 AGGTTCGCATAAAAA-CACAT
* * *
46108543 AGGTTCACATAAATACATAT
1 AGGTTCGCATAAAAACACAT
46108563 AGGGTTCGCATAA
1 A-GGTTCGCATAA
46108576 CATGGCTCGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (20 bp):
AGGTTCGCATAAAAACACAT
Found at i:46113590 original size:28 final size:26
Alignment explanation
Indices: 46113548--46113651 Score: 118
Period size: 27 Copynumber: 3.8 Consensus size: 26
46113538 CTGCCAGAAT
* *
46113548 AGATAACGTGACAGAGTCACCAGAAAC
1 AGATAACGTGGCAGAGCCACCA-AAAC
46113575 AGATAACCGTGGCAGAGCCACCAAAAC
1 AGATAA-CGTGGCAGAGCCACCAAAAC
* *
46113602 AGATATATGTGGCAGAGCCACCAAATC
1 AGATA-ACGTGGCAGAGCCACCAAAAC
* *
46113629 AGATAATTGTGGCATAGCCACCA
1 AGATAA-CGTGGCAGAGCCACCA
46113652 GGACGCTTCC
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
26 1 0.01
27 53 0.77
28 15 0.22
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.14
Consensus pattern (26 bp):
AGATAACGTGGCAGAGCCACCAAAAC
Found at i:46114910 original size:12 final size:12
Alignment explanation
Indices: 46114895--46114921 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
46114885 ATGAAGAGAG
46114895 AAAAAAGAAGAA
1 AAAAAAGAAGAA
46114907 AAAAAAGAAGAA
1 AAAAAAGAAGAA
46114919 AAA
1 AAA
46114922 GGAAGAATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAGAA
Found at i:46114952 original size:27 final size:27
Alignment explanation
Indices: 46114917--46114969 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
46114907 AAAAAAGAAG
46114917 AAAAAGGAAGAATGGTTAGGAAACGGA
1 AAAAAGGAAGAATGGTTAGGAAACGGA
46114944 AAAAAGGAAGAATGGTTAGGAAACGG
1 AAAAAGGAAGAATGGTTAGGAAACGG
46114970 CATTACTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.51, C:0.04, G:0.34, T:0.11
Consensus pattern (27 bp):
AAAAAGGAAGAATGGTTAGGAAACGGA
Found at i:46121440 original size:27 final size:27
Alignment explanation
Indices: 46121405--46121516 Score: 113
Period size: 27 Copynumber: 4.1 Consensus size: 27
46121395 AACATGGCTG
* *
46121405 CCAGA-ACAGAAAATGTGACAGAGTCA
1 CCAGATACAGAAAATGTGGCAGAGCCA
* *
46121431 CTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGAAAAT-GTGGCAGAGCCA
*
46121459 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGA-AAATGTGGCAGAGCCA
* *
46121486 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGA-AAATGTGGCAGAGCCA
46121513 CCAG
1 CCAG
46121517 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 4 0.06
27 52 0.72
28 16 0.22
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (27 bp):
CCAGATACAGAAAATGTGGCAGAGCCA
Found at i:46121465 original size:54 final size:54
Alignment explanation
Indices: 46121405--46121516 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
46121395 AACATGGCTG
* *
46121405 CCAGAACAGA-AAATGTGACAGAGTCACTAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
46121459 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAAATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
46121513 CCAG
1 CCAG
46121517 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATAAATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:46123780 original size:29 final size:29
Alignment explanation
Indices: 46123747--46123817 Score: 133
Period size: 29 Copynumber: 2.4 Consensus size: 29
46123737 TGAGAACTTA
46123747 TGATATGTGAGCCTTTACGGCTGAATCTC
1 TGATATGTGAGCCTTTACGGCTGAATCTC
*
46123776 TGATATGTGAGCCTTTATGGCTGAATCTC
1 TGATATGTGAGCCTTTACGGCTGAATCTC
46123805 TGATATGTGAGCC
1 TGATATGTGAGCC
46123818 CGTCTAGCGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.35
Consensus pattern (29 bp):
TGATATGTGAGCCTTTACGGCTGAATCTC
Found at i:46123947 original size:65 final size:65
Alignment explanation
Indices: 46123824--46123955 Score: 176
Period size: 65 Copynumber: 2.0 Consensus size: 65
46123814 AGCCCGTCTA
* * * * *
46123824 GCGAAGATTGTTTGAATGCAAGTTGGTGTCTTAATGGTTGTTCCTGTTACATGTGTGCCCTTGTG
1 GCGAAGATTGTTTGAATGCAAGTGGGTGTCTTAATGGCTATTCATGATACATGTGTGCCCTTGTG
* * *
46123889 GCGAAGATTGTTTGAATGCAGGTGGGTGTCTTAATGGCTATCTGATGATGCATG-GTGCCCTTGT
1 GCGAAGATTGTTTGAATGCAAGTGGGTGTCTTAATGGCTAT-TCATGATACATGTGTGCCCTTGT
46123953 G
65 G
46123954 GC
1 GC
46123956 TATATGTTGA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
65 50 0.86
66 8 0.14
ACGTcount: A:0.17, C:0.14, G:0.32, T:0.36
Consensus pattern (65 bp):
GCGAAGATTGTTTGAATGCAAGTGGGTGTCTTAATGGCTATTCATGATACATGTGTGCCCTTGTG
Found at i:46128122 original size:2 final size:2
Alignment explanation
Indices: 46128115--46128141 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
46128105 CAAATTAAAC
46128115 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
46128142 TTAATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46138710 original size:30 final size:31
Alignment explanation
Indices: 46138670--46138728 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
46138660 ATCTATTTAC
* *
46138670 TTTCCTCCAAAATTTTTACTCC-CTCCCACT
1 TTTCCACCAAAACTTTTACTCCTCTCCCACT
*
46138700 TTTCCACCAAAACTTTTATTCCTCTCCCA
1 TTTCCACCAAAACTTTTACTCCTCTCCCA
46138729 TCCCACCCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.22, C:0.39, G:0.00, T:0.39
Consensus pattern (31 bp):
TTTCCACCAAAACTTTTACTCCTCTCCCACT
Found at i:46138851 original size:124 final size:127
Alignment explanation
Indices: 46138706--46138942 Score: 324
Period size: 124 Copynumber: 1.9 Consensus size: 127
46138696 CACTTTTCCA
* * *
46138706 CCAAAACTTTTATTCCTCTCCCATCCCACCCCCCTTCTA-CCCAAA-CTCATCCCCTCC-CCCC-
1 CCAAAACGTTTACTCCCCTCCCATCCCACCCCCCTTCTACCCCAAACCT-A-CCCC-CCACCCCA
* *
46138767 CCCTTTTTTAATATT-TCC-CCCCAAAATTTTACTCCTTCAACCCCCAAAACTTTTTATTTTCTC
63 ACCTTTTTTAATATTCTCCTCCCCAAAATTTTACTCCCTCAACCCCCAAAACTTTTTATTTTCTC
* *
46138830 CCAAAACGTTTACTCCCCTCCCATTCCACCCCCCTTCTACCCCAAACCTACCCCCCACCCCAAAT
1 CCAAAACGTTTACTCCCCTCCCATCCCACCCCCCTTCTACCCCAAACCTACCCCCCACCCC-AAC
*
46138895 TTTTTTTAATATTCTCCTCCCCAAAATTTTACTCCCTCAACCCCCAAA
65 CTTTTTTAATATTCTCCTCCCCAAAATTTTACTCCCTCAACCCCCAAA
46138943 TTTTTTTTTA
Statistics
Matches: 98, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
123 2 0.02
124 43 0.44
125 7 0.07
126 14 0.14
127 3 0.03
128 29 0.30
ACGTcount: A:0.24, C:0.46, G:0.00, T:0.30
Consensus pattern (127 bp):
CCAAAACGTTTACTCCCCTCCCATCCCACCCCCCTTCTACCCCAAACCTACCCCCCACCCCAACC
TTTTTTAATATTCTCCTCCCCAAAATTTTACTCCCTCAACCCCCAAAACTTTTTATTTTCTC
Found at i:46139517 original size:30 final size:30
Alignment explanation
Indices: 46139481--46139549 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
46139471 TATATTTGAT
*
46139481 TCGATTCGATTGAATTACATCTCATTCGAC
1 TCGATTCGATTGAATTACATCTCACTCGAC
*
46139511 TCGATTCGATTGAATTCCATCTCACTCGAC
1 TCGATTCGATTGAATTACATCTCACTCGAC
46139541 TCGATTCGA
1 TCGATTCGA
46139550 GAAAATTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (30 bp):
TCGATTCGATTGAATTACATCTCACTCGAC
Found at i:46139714 original size:17 final size:18
Alignment explanation
Indices: 46139681--46139714 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46139671 TAGAAGTAGT
46139681 AATAATTATACATTTAAA
1 AATAATTATACATTTAAA
*
46139699 AATATTTATA-ATTTAA
1 AATAATTATACATTTAA
46139715 TATAAGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
AATAATTATACATTTAAA
Found at i:46141297 original size:38 final size:38
Alignment explanation
Indices: 46141255--46141341 Score: 174
Period size: 38 Copynumber: 2.3 Consensus size: 38
46141245 GGTTAGTTAA
46141255 GTTTCAATTCAATTCAAGTTCGAATTCGAGTTGGACAT
1 GTTTCAATTCAATTCAAGTTCGAATTCGAGTTGGACAT
46141293 GTTTCAATTCAATTCAAGTTCGAATTCGAGTTGGACAT
1 GTTTCAATTCAATTCAAGTTCGAATTCGAGTTGGACAT
46141331 GTTTCAATTCA
1 GTTTCAATTCA
46141342 TTTGATTTCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (38 bp):
GTTTCAATTCAATTCAAGTTCGAATTCGAGTTGGACAT
Found at i:46143316 original size:39 final size:38
Alignment explanation
Indices: 46143261--46143336 Score: 91
Period size: 39 Copynumber: 2.0 Consensus size: 38
46143251 AGTATCAATT
46143261 TCACATTTTATCTTTAAGATAATTTTT-ATTTAAAAAA
1 TCACATTTTATCTTTAAGATAATTTTTAATTTAAAAAA
* * * *
46143298 TCACATTTTTTACATTTAATATATTTTTTAATTTCAAAA
1 TCACATTTTAT-C-TTTAAGATAATTTTTAATTTAAAAA
46143337 TACATAGTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
37 10 0.31
38 1 0.03
39 13 0.41
40 8 0.25
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (38 bp):
TCACATTTTATCTTTAAGATAATTTTTAATTTAAAAAA
Found at i:46144193 original size:15 final size:15
Alignment explanation
Indices: 46144173--46144204 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
46144163 GGTAACGTTG
46144173 TAACTAAGGGTTGAA
1 TAACTAAGGGTTGAA
46144188 TAACTAAGGGTTGAA
1 TAACTAAGGGTTGAA
46144203 TA
1 TA
46144205 CAAAATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.25, T:0.28
Consensus pattern (15 bp):
TAACTAAGGGTTGAA
Found at i:46146803 original size:41 final size:40
Alignment explanation
Indices: 46146738--46146832 Score: 100
Period size: 41 Copynumber: 2.3 Consensus size: 40
46146728 ATAATAAATC
* *
46146738 AAATATATTTAAAACAAATATTAAAATAAGAAACAAATAAA
1 AAATATA-ATAAAACAAATATTAAAACAAGAAACAAATAAA
* * * * * *
46146779 AAATGATACTAAAACAATTCTTAAAACAATATACAAATTAA
1 AAAT-ATAATAAAACAAATATTAAAACAAGAAACAAATAAA
46146820 AAATATAATAAAA
1 AAATATAATAAAA
46146833 AGTGATTATA
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
40 8 0.18
41 34 0.76
42 3 0.07
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.25
Consensus pattern (40 bp):
AAATATAATAAAACAAATATTAAAACAAGAAACAAATAAA
Found at i:46146883 original size:28 final size:27
Alignment explanation
Indices: 46146815--46146883 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 27
46146805 CAATATACAA
* * *
46146815 ATTAAAAATATAATAAAAAGTGATTAT
1 ATTAAAAATAAAATAAAAAGTAAATAT
* *
46146842 ATTAAAATTGAAAATAAAATGTAAATAT
1 ATTAAAAAT-AAAATAAAAAGTAAATAT
46146870 GATTAAAAATAAAA
1 -ATTAAAAATAAAA
46146884 AAATATATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 8 0.24
28 18 0.53
29 8 0.24
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (27 bp):
ATTAAAAATAAAATAAAAAGTAAATAT
Found at i:46158106 original size:19 final size:18
Alignment explanation
Indices: 46158058--46158098 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
46158048 TTTTAAAAGG
* *
46158058 AAAACAAATGAATTTTAA
1 AAAACAAATGAATCTAAA
46158076 AAAACAAATGAATCTAAA
1 AAAACAAATGAATCTAAA
46158094 AAAAC
1 AAAAC
46158099 TTAATGAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.66, C:0.10, G:0.05, T:0.20
Consensus pattern (18 bp):
AAAACAAATGAATCTAAA
Found at i:46160022 original size:17 final size:18
Alignment explanation
Indices: 46159990--46160024 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
46159980 ATAATTTTTA
46159990 AATGTGTCTAAATTAATT
1 AATGTGTCTAAATTAATT
*
46160008 AATGTG-CTGAATTAATT
1 AATGTGTCTAAATTAATT
46160025 TGTGTGTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (18 bp):
AATGTGTCTAAATTAATT
Found at i:46160548 original size:27 final size:26
Alignment explanation
Indices: 46160500--46160559 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
46160490 GCAAGGCTGC
*
46160500 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
46160527 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
46160553 CATATAT
1 CAGATAT
46160560 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:46168508 original size:74 final size:74
Alignment explanation
Indices: 46168381--46168523 Score: 180
Period size: 74 Copynumber: 1.9 Consensus size: 74
46168371 TAGTGCTAGG
* * * * *
46168381 CGCAAATATTGTTAGTAAATCCAACTAGAGTTGGGCTCACTATCTATTCGTCGGCTTATCCGACC
1 CGCAAATACTATTAGTAAATCCAACTAGAGCTGGGCTCACAATCTATTCGTCGGCTTACCCGACC
46168446 AGCGCTGGA
66 AGCGCTGGA
* * * *
46168455 CGCAAATACTATTGGTATATCCAACTAGAGCTGGGCTCACAAAT-TATTTGTCGGTTTACCCGAC
1 CGCAAATACTATTAGTAAATCCAACTAGAGCTGGGCTCAC-AATCTATTCGTCGGCTTACCCGAC
*
46168519 TAGCG
65 CAGCG
46168524 TTGAGCACAA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
74 56 0.97
75 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (74 bp):
CGCAAATACTATTAGTAAATCCAACTAGAGCTGGGCTCACAATCTATTCGTCGGCTTACCCGACC
AGCGCTGGA
Found at i:46168555 original size:35 final size:34
Alignment explanation
Indices: 46168515--46168591 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 34
46168505 TCGGTTTACC
*
46168515 CGACTAGCGTTGAGCACAAC-TTTCGTCAGTTTATT
1 CGACTAGCGTTGAGCA-AACATTT-GTCAGTTCATT
* * * *
46168550 TGACTAGTGTTGTGCATACATTTGTCAGTTCATT
1 CGACTAGCGTTGAGCAAACATTTGTCAGTTCATT
46168584 CGACTAGC
1 CGACTAGC
46168592 ACTAGGCCCA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
34 18 0.53
35 16 0.47
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (34 bp):
CGACTAGCGTTGAGCAAACATTTGTCAGTTCATT
Found at i:46172162 original size:29 final size:29
Alignment explanation
Indices: 46172129--46172317 Score: 238
Period size: 29 Copynumber: 6.5 Consensus size: 29
46172119 GTGACGAGAT
46172129 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
46172158 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
46172187 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
46172216 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
46172245 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
46172274 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
46172303 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
46172318 GAAATCGAGT
Statistics
Matches: 140, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
28 2 0.01
29 137 0.98
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:46176375 original size:13 final size:14
Alignment explanation
Indices: 46176349--46176377 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
46176339 AATAGTAGGG
46176349 AAAGAGAGAAGAAA
1 AAAGAGAGAAGAAA
46176363 AAAGAGA-AAGAAA
1 AAAGAGAGAAGAAA
46176376 AA
1 AA
46176378 GAAAAGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAAGAGAGAAGAAA
Done.