Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 180 of 349
Found at i:58276546 original size:43 final size:42
Alignment explanation
Indices: 58276489--58276642 Score: 132
Period size: 43 Copynumber: 3.6 Consensus size: 42
58276479 GTGTTCTCAA
* *
58276489 GTAAGATCACGTCTGGGACGTTGGCATCGATATGTGATTACGT
1 GTAAGACCATGTCTGGGACGTTGGCATCGATATGTGATT-CGT
* * * * *
58276532 GTAAAACCATGTCTGGGACATTAGCATCG-TATTTGATTTGT
1 GTAAGACCATGTCTGGGACGTTGGCATCGATATGTGATTCGT
* * * * **
58276573 GTAAGACCCTTTCTGGGACAG-TGGCTTTGATATGTGATTGCAA
1 GTAAGACCATGTCTGGGAC-GTTGGCATCGATATGTGATT-CGT
* *
58276616 GTAAGACCACGCCTGGGACGTTGGCAT
1 GTAAGACCATGTCTGGGACGTTGGCAT
58276643 TGTACGATAT
Statistics
Matches: 84, Mismatches: 23, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
41 23 0.27
42 17 0.20
43 44 0.52
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (42 bp):
GTAAGACCATGTCTGGGACGTTGGCATCGATATGTGATTCGT
Found at i:58276588 original size:41 final size:43
Alignment explanation
Indices: 58276499--58276611 Score: 113
Period size: 41 Copynumber: 2.7 Consensus size: 43
58276489 GTAAGATCAC
* *
58276499 GTCTGGGACGTTGGCATCGATATGTGATTACGTGTAAAACCAT
1 GTCTGGGACATTAGCATCGATATGTGATTACGTGTAAAACCAT
* * * *
58276542 GTCTGGGACATTAGCATCG-TATTTGATT-TGTGTAAGACCCT
1 GTCTGGGACATTAGCATCGATATGTGATTACGTGTAAAACCAT
* * * * *
58276583 TTCTGGGACAGTGGCTTTGATATGTGATT
1 GTCTGGGACATTAGCATCGATATGTGATT
58276612 GCAAGTAAGA
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
41 24 0.42
42 16 0.28
43 17 0.30
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.35
Consensus pattern (43 bp):
GTCTGGGACATTAGCATCGATATGTGATTACGTGTAAAACCAT
Found at i:58281818 original size:21 final size:21
Alignment explanation
Indices: 58281792--58281840 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
58281782 TCGAGTATTC
58281792 GATGAATTGTCTTGTACTCCA
1 GATGAATTGTCTTGTACTCCA
58281813 GATGAATTGTCTTGTACTCCA
1 GATGAATTGTCTTGTACTCCA
58281834 GATGAAT
1 GATGAAT
58281841 GTATTAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (21 bp):
GATGAATTGTCTTGTACTCCA
Found at i:58287953 original size:56 final size:55
Alignment explanation
Indices: 58287884--58288146 Score: 332
Period size: 56 Copynumber: 4.7 Consensus size: 55
58287874 CAGACAGGGT
* * * * * *
58287884 CTTACTTGTACACATATATCAGAGTCATATATTGATGCCAACTTATTAAAAGTGG
1 CTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATTAAACGTGG
* *
58287939 CCTTACTCACACACATATAT-GGAGTCACATATCGATGCCAACGTATTAAACGTGG
1 -CTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATTAAACGTGG
* *
58287994 TCTTACTCGCACACATATATCAGAGTTACAAATCGATGCCAACGTATTAAACGTGGG
1 -CTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATTAAACGT-GG
* ** *
58288051 CTTACTCGCACATATATATTGGAGTCACATATTGATGCCAACGTATTAAACGTAGG
1 CTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATTAAACGT-GG
*
58288107 CTTACTCGCACATATATATC-GAAGTCACATATCGATGCCA
1 CTTACTCGCACACATATATCAG-AGTCACATATCGATGCCA
58288147 CATATACTTC
Statistics
Matches: 182, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
55 49 0.27
56 131 0.72
57 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (55 bp):
CTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATTAAACGTGG
Found at i:58288055 original size:111 final size:113
Alignment explanation
Indices: 58287881--58288146 Score: 378
Period size: 112 Copynumber: 2.4 Consensus size: 113
58287871 CCCCAGACAG
* * * * *
58287881 GGTCTTACTTGTACACATATATCAGAGTCATATATTGATGCCAACTTATTAAAAGTGGCCTTACT
1 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATTAAAAGTGGCCTTACT
58287946 CACACACATATA-TGGAGTCACATATCGATGCCAACGTATTAAACGT-
66 CACACACATATATTGGAGTCACATATCGATGCCAACGTATTAAACGTA
* * * *
58287992 GGTCTTACTCGCACACATATATCAGAGTTACAAATCGATGCCAACGTATTAAACGTGGGCTTACT
1 GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATTAAAAGTGGCCTTACT
* * *
58288057 CGCACATATATATTGGAGTCACATATTGATGCCAACGTATTAAACGTA
66 CACACACATATATTGGAGTCACATATCGATGCCAACGTATTAAACGTA
*
58288105 GG-CTTACTCGCACATATATATC-GAAGTCACATATCGATGCCA
1 GGTCTTACTCGCACACATATATCAG-AGTCACATATCGATGCCA
58288147 CATATACTTC
Statistics
Matches: 137, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
111 67 0.49
112 68 0.50
113 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.29
Consensus pattern (113 bp):
GGTCTTACTCGCACACATATATCAGAGTCACATATCGATGCCAACGTATTAAAAGTGGCCTTACT
CACACACATATATTGGAGTCACATATCGATGCCAACGTATTAAACGTA
Found at i:58292100 original size:6 final size:6
Alignment explanation
Indices: 58292071--58292180 Score: 64
Period size: 6 Copynumber: 17.8 Consensus size: 6
58292061 TATTAGAACT
* * * * *
58292071 AGAATC AAAATG AGAATC AAAATC AGAATC AG-GTGAC AGAATT AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * *
58292120 AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGTATC AGGTAA-C AGAATT
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC A-G-AATC AGAATC
58292170 AGAATC AGAAT
1 AGAATC AGAAT
58292181 GTGAATGCAA
Statistics
Matches: 77, Mismatches: 18, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
5 4 0.05
6 62 0.81
7 8 0.10
8 3 0.04
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:58292119 original size:25 final size:25
Alignment explanation
Indices: 58292091--58292180 Score: 99
Period size: 25 Copynumber: 3.4 Consensus size: 25
58292081 TGAGAATCAA
58292091 AATCAGAATCAGGTGACAGAATTAG
1 AATCAGAATCAGGTGACAGAATTAG
*
58292116 AATCAGAATCAGAATTAGGTGACAGAATCAG
1 AATCAGAATC------AGGTGACAGAATTAG
* *
58292147 AATCAGTATCAGGTAACAGAATTAG
1 AATCAGAATCAGGTGACAGAATTAG
58292172 AATCAGAAT
1 AATCAGAAT
58292181 GTGAATGCAA
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
25 31 0.57
31 23 0.43
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (25 bp):
AATCAGAATCAGGTGACAGAATTAG
Found at i:58292126 original size:31 final size:31
Alignment explanation
Indices: 58292083--58292180 Score: 118
Period size: 31 Copynumber: 3.4 Consensus size: 31
58292073 AATCAAAATG
*
58292083 AGAATCAAAATCAGAATCAGGTGACAGAATT
1 AGAATCAGAATCAGAATCAGGTGACAGAATT
*
58292114 AGAATCAGAATCAGAATTAGGTGAC------
1 AGAATCAGAATCAGAATCAGGTGACAGAATT
* *
58292139 AGAATCAGAATCAGTATCAGGTAACAGAATT
1 AGAATCAGAATCAGAATCAGGTGACAGAATT
58292170 AGAATCAGAAT
1 AGAATCAGAAT
58292181 GTGAATGCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
25 22 0.39
31 34 0.61
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATT
Found at i:58292395 original size:27 final size:27
Alignment explanation
Indices: 58292297--58292395 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
58292287 AGCATGGCTG
* *
58292297 CCAG-AACAGATATTGTGACAGAGTCA
1 CCAGAAACAGATATTGTGGCAGAGCCA
*
58292323 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGAAACAGATATTGTGGCAGAGCCA
*
58292350 CCAG-AACAGATATTTGTGGCATAGCCA
1 CCAGAAACAGATA-TTGTGGCAGAGCCA
* *
58292377 CTAGAAACAGATAATGTGG
1 CCAGAAACAGATATTGTGG
58292396 AAAAGGCACT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
26 11 0.17
27 44 0.70
28 8 0.13
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.20
Consensus pattern (27 bp):
CCAGAAACAGATATTGTGGCAGAGCCA
Found at i:58292595 original size:22 final size:22
Alignment explanation
Indices: 58292563--58292620 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
58292553 TAAATATGTT
*
58292563 TGGCACGAAGCCATAGTCAAGA
1 TGGCACAAAGCCATAGTCAAGA
* * * *
58292585 TGGCACAAAGCCATATTTAGGT
1 TGGCACAAAGCCATAGTCAAGA
58292607 TGGCACAAAGCCAT
1 TGGCACAAAGCCAT
58292621 TGATAATGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (22 bp):
TGGCACAAAGCCATAGTCAAGA
Found at i:58292797 original size:16 final size:16
Alignment explanation
Indices: 58292776--58292806 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58292766 ATTCCAACCC
*
58292776 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
58292792 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
58292807 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:58292978 original size:27 final size:28
Alignment explanation
Indices: 58292948--58293224 Score: 292
Period size: 27 Copynumber: 10.3 Consensus size: 28
58292938 GGGGCAAAAT
*
58292948 GGTAATTT-TATCCC-ACAAGGGTATCTC
1 GGTAATTTCTA-CCCTACAAGGGTATTTC
58292975 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTTCTACCCTACAAGGGTATTTC
* * *
58293002 AGTAA-TTCTATCCTACAGGGGTATTTC
1 GGTAATTTCTACCCTACAAGGGTATTTC
* *
58293029 AGTAA-TTCTACCCTACAGGGGTATTTC
1 GGTAATTTCTACCCTACAAGGGTATTTC
*
58293056 GGT-ATTTCTACCCTACAAGGGCATTTC
1 GGTAATTTCTACCCTACAAGGGTATTTC
* *
58293083 GGT-ATTTCTATCCTACAGGGGTATTTC
1 GGTAATTTCTACCCTACAAGGGTATTTC
** *
58293110 AATAA-TTCTACCCTACAGGGGTATTTC
1 GGTAATTTCTACCCTACAAGGGTATTTC
*
58293137 GGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTTCTACCCTACAAGGGTATTTC
*
58293164 GGTAA-TTCTACCCTA-TAGGAGTATTT-
1 GGTAATTTCTACCCTACAAGG-GTATTTC
* * *
58293190 AGTAA-TTCTACCCTATAGGGGTATTTC
1 GGTAATTTCTACCCTACAAGGGTATTTC
58293217 GGTAATTT
1 GGTAATTT
58293225 TACAAATCGA
Statistics
Matches: 216, Mismatches: 23, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
26 32 0.15
27 179 0.83
28 5 0.02
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (28 bp):
GGTAATTTCTACCCTACAAGGGTATTTC
Found at i:58293060 original size:81 final size:81
Alignment explanation
Indices: 58292949--58293220 Score: 413
Period size: 81 Copynumber: 3.4 Consensus size: 81
58292939 GGGCAAAATG
* * * *
58292949 GTAATTTTATCCC-ACAAGGGTATCTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTAT
1 GTAATTCTA-CCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTAT
58293013 CCTACAGGGGTATTTCA
65 CCTACAGGGGTATTTCA
* *
58293030 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGCATTTCGGTATTTCTATC
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTATC
58293095 CTACAGGGGTATTTCA
66 CTACAGGGGTATTTCA
* * *
58293111 ATAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTTGGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTATC
* *
58293176 CTATAGGAGTATTT-A
66 CTACAGGGGTATTTCA
*
58293191 GTAATTCTACCCTATAGGGGTATTTCGGTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTA
58293221 ATTTTACAAA
Statistics
Matches: 175, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
80 32 0.18
81 143 0.82
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (81 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTATC
CTACAGGGGTATTTCA
Found at i:58293238 original size:27 final size:27
Alignment explanation
Indices: 58293208--58293510 Score: 303
Period size: 27 Copynumber: 11.3 Consensus size: 27
58293198 TACCCTATAG
58293208 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
**
58293235 GGGTATTTTAGTAATTTTAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * *
58293261 GAGTATTTTGATAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * * *
58293288 GGATATTTGGGTAATTTTATAAATCGG
1 GGGTATTTCGGTAATTTTACAAATCGA
* **
58293315 GGGTATTTTGGTAATTTTACAGGTCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
*
58293342 GGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
** *
58293369 GGGTATTTTAGTAATTTTGCAAA-CTGA
1 GGGTATTTCGGTAATTTTACAAATC-GA
*
58293396 GGGTATTTCGGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* **
58293423 GAGTATTTTAGTAATTTTAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * * *
58293449 TGGTATTTCGATAATTTTATAAAAT-GG
1 GGGTATTTCGGTAATTTTA-CAAATCGA
* *
58293476 GGGTACTTT-GGTAATTTTACAACTAG-
1 GGGTA-TTTCGGTAATTTTACAAATCGA
58293502 GGGTATTTC
1 GGGTATTTC
58293511 AATAATTCGG
Statistics
Matches: 226, Mismatches: 42, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
25 3 0.01
26 51 0.23
27 166 0.73
28 6 0.03
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCGA
Found at i:58293383 original size:81 final size:79
Alignment explanation
Indices: 58293154--58293497 Score: 329
Period size: 80 Copynumber: 4.3 Consensus size: 79
58293144 CTACCCTACA
* * * * ** * *
58293154 AGGGTATTTTGGTAATTCTACCCTATAG-GAGTATTTAGTAATTCTACCCTATAG-GGGTATTTC
1 AGGGTATTTTGGTAATTTTA--CAATCGAGAGTATTTAGTAATTTTA-CAAATCGAGGGTATTTT
58293217 GGTAATTTTACAAATCG
63 GGTAATTTTACAAATCG
* * * *
58293234 AGGGTATTTTAGTAATTTTACAATCGAGAGTATTTTGATAATTTTACAAATCGAGGATATTTGGG
1 AGGGTATTTTGGTAATTTTACAATCGAGAGTATTTAG-TAATTTTACAAATCGAGGGTATTTTGG
*
58293299 TAATTTTATAAATCG
65 TAATTTTACAAATCG
* * * *
58293314 GGGGTATTTTGGTAATTTTACAGGTCGAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTTA
1 AGGGTATTTTGGTAATTTTACA-ATCGAGAGTATTT-AGTAATTTTACAAATCGAGGGTATTTTG
*
58293379 GTAATTTTGCAAA-CTG
64 GTAATTTTACAAATC-G
* * * *
58293395 AGGGTATTTCGGTAATTTTACAAATTGAGAGTATTTTAGTAATTTTAC-AATCGATGGTATTTCG
1 AGGGTATTTTGGTAATTTTAC-AATCGAGAGTA-TTTAGTAATTTTACAAATCGAGGGTATTTTG
* *
58293459 ATAATTTTATAAAAT-G
64 GTAATTTTA-CAAATCG
* *
58293475 GGGGTACTTTGGTAATTTTACAA
1 AGGGTATTTTGGTAATTTTACAA
58293498 CTAGGGGTAT
Statistics
Matches: 218, Mismatches: 36, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
78 4 0.02
79 15 0.07
80 108 0.50
81 86 0.39
82 5 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (79 bp):
AGGGTATTTTGGTAATTTTACAATCGAGAGTATTTAGTAATTTTACAAATCGAGGGTATTTTGGT
AATTTTACAAATCG
Found at i:58296877 original size:27 final size:27
Alignment explanation
Indices: 58296847--58296910 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
58296837 ATTTACTAAA
58296847 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
* *
58296874 ATACCTCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATT
58296900 ATACCCCTAAG
1 ATACCCCTAAG
58296911 GTTAATTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.06
26 21 0.66
27 9 0.28
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:58297052 original size:27 final size:27
Alignment explanation
Indices: 58297014--58297121 Score: 155
Period size: 27 Copynumber: 4.0 Consensus size: 27
58297004 GAGGAAGCGT
58297014 TCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
*
58297041 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
58297069 TCTGGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* * *
58297096 TCTAGTGACTCTGTCACAATATCTGT
1 TCTGGTGGCTCTGCCACAATATCTGT
58297122 TCTAGCAACC
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
27 58 0.77
28 17 0.23
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:58297108 original size:55 final size:54
Alignment explanation
Indices: 58297013--58297122 Score: 168
Period size: 55 Copynumber: 2.0 Consensus size: 54
58297003 GGAGGAAGCG
* *
58297013 TTCTGGTGGCTCTGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGATCTAGTGACTCTGCCAC-AATATCTGT
*
58297068 TTCTGGTGGCTCTGCCAC-AATATCTGTATCTAGTGACTCTGTCACAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTG-ATCTAGTGACTCTGCCACAATATCTGT
58297122 T
1 T
58297123 CTAGCAACCA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
54 18 0.35
55 33 0.65
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (54 bp):
TTCTGGTGGCTCTGCCACAAATATCTGATCTAGTGACTCTGCCACAATATCTGT
Found at i:58298797 original size:46 final size:48
Alignment explanation
Indices: 58298718--58298937 Score: 226
Period size: 46 Copynumber: 4.7 Consensus size: 48
58298708 GTGTGAACCT
* * *
58298718 GTGTAAGACCATGCCTGGGACATGGCATTGGCATTGAGACGAGT-GCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGA-TAGCTA
58298766 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGAC-ATAAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGAT-AGCTA
* * *
58298812 GTGTGAGA-CATGGCTGGGACAT-GCATCGGC-TACGAGATG-T-G-TCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGAGACGATAGCT-A
* * *
58298856 GTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCATCGA-GACGATAGCTA
* *
58298905 GTGTAAGACCATGTCCGGGACATGGCATAGGCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCA
58298938 ACTTACCCCG
Statistics
Matches: 148, Mismatches: 12, Indels: 23
0.81 0.07 0.13
Matches are distributed among these distances:
43 1 0.01
44 10 0.07
45 15 0.10
46 63 0.43
47 18 0.12
48 9 0.06
49 32 0.22
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGATAGCTA
Found at i:58301383 original size:27 final size:26
Alignment explanation
Indices: 58301343--58301457 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
58301333 AGCATGGCTG
*
58301343 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
* *
58301369 CCAGATACAGATATTGTGGCAGAACCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* *
58301396 CCAGAACAGATATCTGTGGCATAGCCA
1 CCAGAACAGATAT-TGTGACAGAGCCA
*
58301423 CCAGAAACAGATAATTGTGACATAGCCA
1 CCAG-AACAGAT-ATTGTGACAGAGCCA
58301451 CCAGAAC
1 CCAGAAC
58301458 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
26 13 0.16
27 41 0.52
28 23 0.29
29 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:58301592 original size:20 final size:20
Alignment explanation
Indices: 58301567--58301606 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
58301557 ACCCTAGGGG
58301567 TATAATGGTAATTTTACATA
1 TATAATGGTAATTTTACATA
*
58301587 TATAATGGTAATTTTGCATA
1 TATAATGGTAATTTTACATA
58301607 CTTAGGGGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
TATAATGGTAATTTTACATA
Found at i:58301618 original size:28 final size:27
Alignment explanation
Indices: 58301587--58301640 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
58301577 ATTTTACATA
*
58301587 TATAATGGTAATTTTGCATACTTAGGGG
1 TATAATGGTAATTAT-CATACTTAGGGG
58301615 TATAATGGTAATTATCATACTTAGGG
1 TATAATGGTAATTATCATACTTAGGG
58301641 TATTTTAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.39
Consensus pattern (27 bp):
TATAATGGTAATTATCATACTTAGGGG
Found at i:58312773 original size:27 final size:26
Alignment explanation
Indices: 58312717--58312773 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
58312707 CAACCTTAAC
* * *
58312717 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
58312743 CCTAGGGGTAAATCTA-TAAATTTTCCA
1 CCTAGGGGTAAATC-AGT-AATTTTCCA
58312770 CCTA
1 CCTA
58312774 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:58315396 original size:34 final size:35
Alignment explanation
Indices: 58315338--58315409 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
58315328 CGTATCCTAG
*
58315338 CTACAGTCTCAGTCTTCTAAAGTTTTCAGT-TTTCC
1 CTACAGTCTCAGTCTTCTAAAG-TTTCAGTATTACC
* *
58315373 CTACTGTCTCAGT-TTCTACAGTTTCAGTATTACC
1 CTACAGTCTCAGTCTTCTAAAGTTTCAGTATTACC
58315407 CTA
1 CTA
58315410 ACTACAGAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 7 0.21
34 14 0.42
35 12 0.36
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (35 bp):
CTACAGTCTCAGTCTTCTAAAGTTTCAGTATTACC
Found at i:58320185 original size:39 final size:40
Alignment explanation
Indices: 58320069--58320252 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
58320059 CTACTCGTTA
* *
58320069 AAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCAC
58320109 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * *
58320149 CAATGCCTTCGGG-CTTATCCCGGAATTAGTATCTCGCAC
1 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
** * * * *
58320188 AAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC
1 AAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
*
58320229 AAA-GCCTTCGGGACTTAGCCCGGA
1 AAATGCCTTCGGGACTTAACCCGGA
58320253 CATCATTCGA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:58320236 original size:79 final size:80
Alignment explanation
Indices: 58320073--58320252 Score: 206
Period size: 79 Copynumber: 2.3 Consensus size: 80
58320063 TCGTTAAAAT
* * *
58320073 GCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTT
1 GCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATAT
* *
58320137 AGTAACTCGCACCAAT
65 AGTAACTAGCACCAAA
* * **
58320153 GCCTTCGGG-CTTATCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATAT
* *
58320216 GGTCACTTAGCA-CAAA
65 AGTAAC-TAGCACCAAA
58320232 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
58320253 CATCATTCGA
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
78 3 0.04
79 57 0.68
80 24 0.29
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATA
GTAACTAGCACCAAA
Found at i:58323038 original size:34 final size:35
Alignment explanation
Indices: 58322967--58323038 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 35
58322957 CGTATCCTAG
*
58322967 CTACAGTCTCAGTCTTCTAAAGTTTTCAGTTTTCC
1 CTACAGTCTCAGTCTTCTAAAGTTTTCAGTTTACC
* * *
58323002 CTACTGTCTTAGT-TTCTACAGTTTT-AGTATTACC
1 CTACAGTCTCAGTCTTCTAAAGTTTTCAGT-TTACC
58323036 CTA
1 CTA
58323039 ACTACAGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 3 0.09
34 18 0.56
35 11 0.34
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.44
Consensus pattern (35 bp):
CTACAGTCTCAGTCTTCTAAAGTTTTCAGTTTACC
Found at i:58324624 original size:26 final size:26
Alignment explanation
Indices: 58324595--58324672 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 26
58324585 CAACCATAAC
* *
58324595 CCTAAGGGTATATCAGTAATTTTGCT
1 CCTAAGGGTATATCAGTAATTTTCCA
* * *
58324621 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAAGGGTATATCAGT-AATTTTCCA
* *
58324648 CCTATAAAGGTATTTCAGTAATTTT
1 CC--TAAGGGTATATCAGTAATTTT
58324673 ATAAGTTTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
26 14 0.36
27 9 0.23
28 6 0.15
29 10 0.26
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (26 bp):
CCTAAGGGTATATCAGTAATTTTCCA
Found at i:58328052 original size:46 final size:44
Alignment explanation
Indices: 58327943--58328109 Score: 131
Period size: 46 Copynumber: 3.6 Consensus size: 44
58327933 GTCATTGGTG
* * * *
58327943 TGTGCCAGTGTAAGACCATGTCTGGGACATAGCATCG-GTATTGAGA
1 TGTGCCAGTGTAAGA-CATGTCTAGGACATA-CATTGCCTA-CGAGA
* * * *
58327989 CGAGTGCTAGTGTAAGACATATCTAGGACATACATCTTCCT-CGAGA
1 --TGTGCCAGTGTAAGACATGTCTAGGACATACAT-TGCCTACGAGA
* * *
58328035 TGTAAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCTACGAGA
1 TGT--GCCAGTGTAAGACATGTCTAGGACATACATTGCCTACGAGA
*
58328081 TGTGTCAGTGTAAGACCATGTCTAGGACA
1 TGTGCCAGTGTAAGA-CATGTCTAGGACA
58328110 GGCATCGGTA
Statistics
Matches: 96, Mismatches: 17, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
44 13 0.14
45 15 0.16
46 41 0.43
47 13 0.14
48 14 0.15
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (44 bp):
TGTGCCAGTGTAAGACATGTCTAGGACATACATTGCCTACGAGA
Found at i:58335398 original size:20 final size:20
Alignment explanation
Indices: 58335373--58335424 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
58335363 AGGGCTGAGG
58335373 ACACGGGCATGTCCCAAGCC
1 ACACGGGCATGTCCCAAGCC
58335393 ACACGGGCATGTCCCAAGCC
1 ACACGGGCATGTCCCAAGCC
58335413 ACACGGGCATGT
1 ACACGGGCATGT
58335425 GACTCTCCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.25, C:0.37, G:0.27, T:0.12
Consensus pattern (20 bp):
ACACGGGCATGTCCCAAGCC
Found at i:58341657 original size:20 final size:21
Alignment explanation
Indices: 58341617--58341658 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
58341607 AAACTTGTAT
58341617 ATCTATCAAAAAGCATTCATA
1 ATCTATCAAAAAGCATTCATA
58341638 ATCTATCAAGAAA-C-TTCATA
1 ATCTATCAA-AAAGCATTCATA
58341658 A
1 A
58341659 ACACATGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 10 0.50
22 3 0.15
ACGTcount: A:0.48, C:0.19, G:0.05, T:0.29
Consensus pattern (21 bp):
ATCTATCAAAAAGCATTCATA
Found at i:58344119 original size:90 final size:91
Alignment explanation
Indices: 58343965--58344236 Score: 528
Period size: 91 Copynumber: 3.0 Consensus size: 91
58343955 TTTTATCAAA
*
58343965 GATATGGCTTTTTTTACCTTACAAATGGTGTTGCCAAAATTTCAATACGAAAACAATAGCAGCCA
1 GATATGGCTTTTTTTACCTTACAAATGGTGTTGCCAAAATTTCAATGCGAAAACAATAGCAGCCA
58344030 ACTTTAAATCGTGCATCAAATAGTTC
66 ACTTTAAATCGTGCATCAAATAGTTC
58344056 GATATGGC-TTTTTTACCTTACAAATGGTGTTGCCAAAATTTCAATGCGAAAACAATAGCAGCCA
1 GATATGGCTTTTTTTACCTTACAAATGGTGTTGCCAAAATTTCAATGCGAAAACAATAGCAGCCA
58344120 ACTTTAAATCGTGCATCAAATAGTTC
66 ACTTTAAATCGTGCATCAAATAGTTC
58344146 GATATGGCTTTTTTTACCTTACAAATGGTGTTGCCAAAATTTCAATGCGAAAACAATAGCAGCCA
1 GATATGGCTTTTTTTACCTTACAAATGGTGTTGCCAAAATTTCAATGCGAAAACAATAGCAGCCA
58344211 ACTTTAAATCGTGCATCAAATAGTTC
66 ACTTTAAATCGTGCATCAAATAGTTC
58344237 TTTTCATGCA
Statistics
Matches: 179, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
90 89 0.50
91 90 0.50
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.32
Consensus pattern (91 bp):
GATATGGCTTTTTTTACCTTACAAATGGTGTTGCCAAAATTTCAATGCGAAAACAATAGCAGCCA
ACTTTAAATCGTGCATCAAATAGTTC
Found at i:58351691 original size:18 final size:20
Alignment explanation
Indices: 58351653--58351696 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
58351643 AACAATTAAT
58351653 AATTAATATAGTGCATATTA
1 AATTAATATAGTGCATATTA
*
58351673 AATTATTAT-GTGC-TATT-
1 AATTAATATAGTGCATATTA
58351690 AATTAAT
1 AATTAAT
58351697 TAAAGATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 6 0.27
18 4 0.18
19 4 0.18
20 8 0.36
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (20 bp):
AATTAATATAGTGCATATTA
Found at i:58351698 original size:18 final size:20
Alignment explanation
Indices: 58351652--58351698 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
58351642 CAACAATTAA
58351652 TAATTAA-TATAGTGCATAT
1 TAATTAATTATAGTGCATAT
58351671 TAAATT-ATTAT-GTGC-TAT
1 T-AATTAATTATAGTGCATAT
58351689 TAATTAATTA
1 TAATTAATTA
58351699 AAGATAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
17 4 0.16
18 8 0.32
19 6 0.24
20 7 0.28
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (20 bp):
TAATTAATTATAGTGCATAT
Found at i:58354187 original size:23 final size:23
Alignment explanation
Indices: 58354160--58354208 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
58354150 ATTTCATATT
58354160 TTTAAGCTTTATTAACCAAAGTA
1 TTTAAGCTTTATTAACCAAAGTA
* *
58354183 TTTAAGTTTTATTCACCAAAGTA
1 TTTAAGCTTTATTAACCAAAGTA
58354206 TTT
1 TTT
58354209 GAAATATCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (23 bp):
TTTAAGCTTTATTAACCAAAGTA
Found at i:58354916 original size:42 final size:42
Alignment explanation
Indices: 58354850--58355006 Score: 226
Period size: 42 Copynumber: 3.7 Consensus size: 42
58354840 CTTCGTTTTC
** * * * *
58354850 TCGATGCCATAGTTCAACTGTGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGACCAGCTATGGTCTTACACATATTCATAT-A
58354893 T-GATGCCATAGACCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGACCAGCTATGGTCTTACACATATTCATATA
58354934 TCGATGCCATAGACCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGACCAGCTATGGTCTTACACATATTCATATA
* *
58354976 TCGATGCCATAGCCCAGTTATGGTCTTACAC
1 TCGATGCCATAGACCAGCTATGGTCTTACAC
58355007 GTAATCACAT
Statistics
Matches: 105, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
41 2 0.02
42 102 0.97
43 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGACCAGCTATGGTCTTACACATATTCATATA
Found at i:58355037 original size:49 final size:48
Alignment explanation
Indices: 58354973--58355066 Score: 152
Period size: 49 Copynumber: 1.9 Consensus size: 48
58354963 ACATATTCAT
* *
58354973 ATATCGATGCCATAGCCCAGTTATGGTCTTACACGTAATCACATATAAC
1 ATATCGATACCATAGCCCAGCTATGGTCTTACACG-AATCACATATAAC
*
58355022 ATATTGATACCATAGCCCAGCTATGGTCTTACACGAATCACATAT
1 ATATCGATACCATAGCCCAGCTATGGTCTTACACGAATCACATAT
58355067 CTCACTGATG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
48 10 0.24
49 32 0.76
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (48 bp):
ATATCGATACCATAGCCCAGCTATGGTCTTACACGAATCACATATAAC
Found at i:58355129 original size:47 final size:46
Alignment explanation
Indices: 58354977--58355151 Score: 170
Period size: 47 Copynumber: 3.7 Consensus size: 46
58354967 ATTCATATAT
* * * * * *
58354977 CGATGCCATAGCCCAGTTATGGTCTTACACGTAATCACATATAACATAT
1 CGATGCCATATCCCAGATATGGTCTTATACG-AAGCACATAT--CACAC
* * * * * * *
58355026 TGATACCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
* * *
58355072 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACAC
58355119 CGATGCCATATCCCAGATATGGTCTTATACGAA
1 CGATGCCATATCCCAGATATGGTCTTATACGAA
58355152 AATCACTTGT
Statistics
Matches: 109, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
46 30 0.28
47 41 0.38
48 10 0.09
49 28 0.26
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACAC
Found at i:58355202 original size:31 final size:31
Alignment explanation
Indices: 58355167--58355346 Score: 290
Period size: 31 Copynumber: 5.8 Consensus size: 31
58355157 CTTGTCACTT
*
58355167 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
58355198 GTAGCC-AGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
* *
58355229 GTAGCCGGAGCTACCACTTTTCACTGATCAT
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
58355260 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
58355291 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
58355322 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
58355347 TGTTATTTGT
Statistics
Matches: 138, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
30 1 0.01
31 137 0.99
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:58356498 original size:16 final size:18
Alignment explanation
Indices: 58356467--58356501 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
58356457 CAATTAACCC
58356467 CTCAATTAAGATAATTTT
1 CTCAATTAAGATAATTTT
58356485 CTCAATT-A-ATAATTTT
1 CTCAATTAAGATAATTTT
58356501 C
1 C
58356502 CTAGACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (18 bp):
CTCAATTAAGATAATTTT
Found at i:58364220 original size:26 final size:26
Alignment explanation
Indices: 58364191--58364242 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
58364181 CATATTCGGC
58364191 CATAACC-AATATAAATTCTAACATTT
1 CATAACCGAATATAAATT-TAACATTT
* *
58364217 CATAACCGCATATATATTTAACATTT
1 CATAACCGAATATAAATTTAACATTT
58364243 AACTACTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.37
Consensus pattern (26 bp):
CATAACCGAATATAAATTTAACATTT
Found at i:58371578 original size:40 final size:41
Alignment explanation
Indices: 58371493--58371590 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 41
58371483 CTATGTCGAT
58371493 ATCGCACACTTAGTGCC-TTATATAGCCGAACCTATGCCAA
1 ATCGCACACTTAGTGCCATTATATAGCCGAACCTATGCCAA
* * * * ***
58371533 TTCGCACACTTAGTGCCATT-TGTAGCCGAAGCTTTTTTAA
1 ATCGCACACTTAGTGCCATTATATAGCCGAACCTATGCCAA
*
58371573 ATCGCACATTTAGTGCCA
1 ATCGCACACTTAGTGCCA
58371591 AACACTTTTG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
40 46 0.96
41 2 0.04
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (41 bp):
ATCGCACACTTAGTGCCATTATATAGCCGAACCTATGCCAA
Found at i:58374538 original size:53 final size:54
Alignment explanation
Indices: 58374459--58374774 Score: 363
Period size: 55 Copynumber: 5.9 Consensus size: 54
58374449 TTTCCTTTTT
* * * * *
58374459 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCGTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* *
58374512 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGGA-CCTTTTCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA
* * *
58374566 GTAAGTCATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * *
58374620 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACACGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA
** * *
58374674 GTAACTCATTAATGCCATGTCTTGACATGGTCTTACATGAT-TGCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTAT-CCTTGCCTTATA
* * * *
58374729 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
58374775 ATCTTACCAA
Statistics
Matches: 224, Mismatches: 29, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
52 3 0.01
53 87 0.39
54 42 0.19
55 88 0.39
56 4 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:58374598 original size:108 final size:108
Alignment explanation
Indices: 58374470--58374766 Score: 479
Period size: 108 Copynumber: 2.7 Consensus size: 108
58374460 AACTTACCAT
* *
58374470 TGCCATGTCTTGACATGGTCTTACGTGGTATCGTTGCCTTATGAACTCACCAATGCCATGCCTTG
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
* * *
58374535 ACATGGTCTTACATGGGACCTTTTCCTTATAGTAAGTCATCAA
66 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
58374578 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
1 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
* *
58374643 GCATGGTCTTACACGGGACCTTTGCCTTATAGTAACTCATTAA
66 GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
* * *
58374686 TGCCATGTCTTGACATGGTCTTACATGAT-TGCCTTGCCTTATAGAACTTATCAATGCCATGCCT
1 TGCCATGTCTTGACATGGTCTTACATGGTAT-CCTTGCCTTAT-GAACTCACCAATGCCATGCCT
58374750 TGGCATGGTCTTACATG
64 TGGCATGGTCTTACATG
58374767 ATATCCTTAT
Statistics
Matches: 176, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
107 1 0.01
108 140 0.80
109 35 0.20
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (108 bp):
TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
GCATGGTCTTACATGGGACCTTTGCCTTATAGTAACTCATCAA
Found at i:58375587 original size:30 final size:31
Alignment explanation
Indices: 58375544--58375601 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
58375534 CTAACTCAAA
*
58375544 CTTTGGCAAAATTACAATTTTGCCCCTAAAC
1 CTTTGGCAAAATTACAATTTTGACCCTAAAC
* *
58375575 CTTT-GCAGAATTACGATTTTGACCCTA
1 CTTTGGCAAAATTACAATTTTGACCCTA
58375602 GGATCGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 20 0.83
31 4 0.17
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (31 bp):
CTTTGGCAAAATTACAATTTTGACCCTAAAC
Found at i:58379051 original size:51 final size:51
Alignment explanation
Indices: 58378975--58379078 Score: 174
Period size: 51 Copynumber: 2.0 Consensus size: 51
58378965 AACTATTGTG
58378975 CCTCGATTTTAGGTCTATTAATACCCTG-ATTAAGATCATCAAACACTAGTA
1 CCTCGATTTTAGGTCTATTAATACCC-GAATTAAGATCATCAAACACTAGTA
* *
58379026 CCTCGATTTTAGGTCTATTAATACCCGAATTAAGATCATGAAATACTAGTA
1 CCTCGATTTTAGGTCTATTAATACCCGAATTAAGATCATCAAACACTAGTA
58379077 CC
1 CC
58379079 GCATACTATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
50 1 0.02
51 49 0.98
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (51 bp):
CCTCGATTTTAGGTCTATTAATACCCGAATTAAGATCATCAAACACTAGTA
Found at i:58384649 original size:43 final size:43
Alignment explanation
Indices: 58384602--58384726 Score: 105
Period size: 42 Copynumber: 2.9 Consensus size: 43
58384592 TCCCAGACGT
* *
58384602 GGTCTTACATGTAACTCAATATCGATGCCTTTGTCCCAGAAAG
1 GGTCTTACATGTAACTCAATATCGACGCCTATGTCCCAGAAAG
* * * * *
58384645 GGTCTTACACG-AAATCAGATA-CGACGCCGATGTCCCAGACAT
1 GGTCTTACATGTAACTCA-ATATCGACGCCTATGTCCCAGAAAG
* * *
58384687 GGTCTTATATGTAAATCTC-A-ATCGAGGCCTGTGTCCCAGA
1 GGTCTTACATGT-AA-CTCAATATCGACGCCTATGTCCCAGA
58384727 CACGATCTTA
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
42 31 0.48
43 29 0.45
44 2 0.03
45 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (43 bp):
GGTCTTACATGTAACTCAATATCGACGCCTATGTCCCAGAAAG
Found at i:58384727 original size:43 final size:43
Alignment explanation
Indices: 58384591--58384738 Score: 126
Period size: 43 Copynumber: 3.5 Consensus size: 43
58384581 CAATGCCAAC
* * * *
58384591 GTCCCAGACGTGGTCTTACATGT-AACTCAATATCGATGCCTTT
1 GTCCCAGACATGGTCTTACATGTAAACTC-AGATCGACGCCTGT
* * *
58384634 GTCCCAGAAAGGGTCTTACACG-AAA-TCAGATACGACGCC-GAT
1 GTCCCAGACATGGTCTTACATGTAAACTCAGAT-CGACGCCTG-T
* *
58384676 GTCCCAGACATGGTCTTATATGTAAATCTCA-ATCGAGGCCTGT
1 GTCCCAGACATGGTCTTACATGTAAA-CTCAGATCGACGCCTGT
* *
58384719 GTCCCAGACACGATCTTACA
1 GTCCCAGACATGGTCTTACA
58384739 CGATGTCTTA
Statistics
Matches: 83, Mismatches: 15, Indels: 14
0.74 0.13 0.12
Matches are distributed among these distances:
41 3 0.04
42 27 0.33
43 47 0.57
44 3 0.04
45 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGTAAACTCAGATCGACGCCTGT
Found at i:58404879 original size:15 final size:17
Alignment explanation
Indices: 58404859--58404891 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
58404849 ATAAGAATTC
58404859 GTGAT-ATATGT-ATAT
1 GTGATAATATGTGATAT
58404874 GTGATAATATGTGATAT
1 GTGATAATATGTGATAT
58404891 G
1 G
58404892 AAAGTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 6 0.38
17 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.24, T:0.42
Consensus pattern (17 bp):
GTGATAATATGTGATAT
Found at i:58410344 original size:17 final size:18
Alignment explanation
Indices: 58410313--58410346 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
58410303 GGCTAAAATA
58410313 GGCCGTGTGGACCCCACG
1 GGCCGTGTGGACCCCACG
*
58410331 GGCC-TGTGGGCCCCAC
1 GGCCGTGTGGACCCCAC
58410347 ACGGGTAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.09, C:0.41, G:0.38, T:0.12
Consensus pattern (18 bp):
GGCCGTGTGGACCCCACG
Found at i:58410606 original size:27 final size:27
Alignment explanation
Indices: 58410576--58410671 Score: 138
Period size: 27 Copynumber: 3.6 Consensus size: 27
58410566 CCCTGGTTGA
* *
58410576 TAAAATGACTGTTTTTCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATATGG
* *
58410603 TAAAATAACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATATGG
58410630 TAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATATGG
* *
58410657 TAAGATGACTGTTTT
1 TAAAATGACTATTTT
58410672 TCTCTATGTG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.43
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATATGG
Found at i:58412090 original size:41 final size:41
Alignment explanation
Indices: 58412032--58412113 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
58412022 TAAAAGCCAC
*
58412032 CGGTGGATCCACAGTCGTCAAGCAACTACGCGATCCTCAAT
1 CGGTGGATCCACAGTCGTCAAGCAACCACGCGATCCTCAAT
* *
58412073 CGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACAGTCGTCAAGCAACCACGCGATCCTCAAT
58412114 TTCTTCCTCC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.26, C:0.32, G:0.23, T:0.20
Consensus pattern (41 bp):
CGGTGGATCCACAGTCGTCAAGCAACCACGCGATCCTCAAT
Found at i:58412406 original size:27 final size:27
Alignment explanation
Indices: 58412380--58412860 Score: 186
Period size: 27 Copynumber: 17.4 Consensus size: 27
58412370 ATCTACAAAC
* * *
58412380 CAAGGGTATTCCGGTAATTTTGTAAAC
1 CAAGGGTATTTCGATAATTTTGTAAAT
* *
58412407 CAATGGTATTTCTATAATTTTCG-AAAGT
1 CAAGGGTATTTCGATAATTTT-GTAAA-T
*
58412435 CAAGGGTATTTCTATAATTTTGTAAAT
1 CAAGGGTATTTCGATAATTTTGTAAAT
* *
58412462 C-AGAGGTGTTCCTG-TAATTTT-TCAAAT
1 CAAG-GGTATTTC-GATAATTTTGT-AAAT
* * **
58412489 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGATAATTTTGTAAAT
*
58412516 CGAGGGTATTTCGATAATTTTCCTGTAATTTTTCAAAT
1 CAAGGGTATTTCGATAA-TTT--TG-------T-AAAT
* * **
58412554 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGATAATTTTGTAAAT
** * *
58412581 TGAGGGTATTTCGATAATTTTGCAAGT
1 CAAGGGTATTTCGATAATTTTGTAAAT
* * ** *
58412608 CAAGGGTATTTTGGTAATTTTACAAGT
1 CAAGGGTATTTCGATAATTTTGTAAAT
* ** *
58412635 -AGAGGGTATTTCGCTAATTTTACAAGT
1 CA-AGGGTATTTCGATAATTTTGTAAAT
* ** **
58412662 CGAGGGTATTTC-AGTAATTTTACAGGT
1 CAAGGGTATTTCGA-TAATTTTGTAAAT
* * * ***
58412689 CGAGGGTATTTAGGTAATTTCACAAAT
1 CAAGGGTATTTCGATAATTTTGTAAAT
* * * **
58412716 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGATAATTTTGTAAAT
* * * ** *
58412743 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCGATAATTTTGTAAAT
* ** *
58412770 CAA-GGTATTTCGGTAATTTTGCCAAC
1 CAAGGGTATTTCGATAATTTTGTAAAT
* * *
58412796 CAAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCGATAATTTTGTAAAT
* * *
58412823 CAAGGGTA-TTCAATAATTTTATAAAC
1 CAAGGGTATTTCGATAATTTTGTAAAT
58412849 CAAGGGTATTTC
1 CAAGGGTATTTC
58412861 AGTAATAGTA
Statistics
Matches: 368, Mismatches: 60, Indels: 52
0.77 0.12 0.11
Matches are distributed among these distances:
26 50 0.14
27 266 0.72
28 29 0.08
30 1 0.00
35 1 0.00
37 3 0.01
38 18 0.05
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGATAATTTTGTAAAT
Found at i:58412480 original size:55 final size:54
Alignment explanation
Indices: 58412375--58412509 Score: 139
Period size: 55 Copynumber: 2.5 Consensus size: 54
58412365 GGTAAATCTA
* * * *
58412375 CAAACCAAGGGTATTCCGGTAATTTTGTAAACCAATGGTATTTCTATAA-TTTT
1 CAAATCAAGGGTATTTCGATAATTTTGTAAACCAATGGTATTCCTATAATTTTT
* * * *
58412428 CGAAAGTCAAGGGTATTTCTATAATTTTGTAAATCAGA-GGTGTTCCTGTAATTTTT
1 C-AAA-TCAAGGGTATTTCGATAATTTTGTAAACCA-ATGGTATTCCTATAATTTTT
* *
58412484 CAAATCAAGGGTATTTTGGTAATTTT
1 CAAATCAAGGGTATTTCGATAATTTT
58412510 ACAAATCGAG
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
53 1 0.01
54 22 0.33
55 38 0.57
56 6 0.09
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (54 bp):
CAAATCAAGGGTATTTCGATAATTTTGTAAACCAATGGTATTCCTATAATTTTT
Found at i:58412509 original size:54 final size:55
Alignment explanation
Indices: 58412375--58412832 Score: 264
Period size: 54 Copynumber: 8.3 Consensus size: 55
58412365 GGTAAATCTA
* ** ** * * * *
58412375 CAAACCAAGGGTATTCCGGTAATTTTGTAAACCA-ATGGTATTTCTATAA-TTTT
1 CAAATCAAGGGTATTTTGGTAATTTTACAAATCAGAGGGTATTCCTGTAATTTTT
* ** *
58412428 CGAAAGTCAAGGGTATTTCT-ATAATTTTGTAAATCAGA-GGTGTTCCTGTAATTTTT
1 C-AAA-TCAAGGGTATTT-TGGTAATTTTACAAATCAGAGGGTATTCCTGTAATTTTT
58412484 CAAATCAAGGGTATTTTGGTAATTTTACAAATC-GAGGGTATTTCGATAATTTTCCTGTAATTTT
1 CAAATCAAGGGTATTTTGGTAATTTTACAAATCAGA-GG------G-T-A--TTCCTGTAATTTT
58412548 T
55 T
* * *
58412549 CAAATCAAGGGTATTTTGGTAATTTTACAAAT-TGAGGGTATTTC-GATAATTTTG
1 CAAATCAAGGGTATTTTGGTAATTTTACAAATCAGAGGGTATTCCTG-TAATTTTT
* * * *
58412603 CAAGTCAAGGGTATTTTGGTAATTTTACAAGT-AGAGGGTATTTC-GCTAATTTTA
1 CAAATCAAGGGTATTTTGGTAATTTTACAAATCAGAGGGTATTCCTG-TAATTTTT
* * ** ** *** **
58412657 CAAGTCGAGGGTATTTCAGTAATTTTACAGGTC-GAGGGTATTTAGGTAATTTCA
1 CAAATCAAGGGTATTTTGGTAATTTTACAAATCAGAGGGTATTCCTGTAATTTTT
* * *
58412711 CAAATCAGGGGTATTTTGGTAATTTTACAAATCAG-GGGTATT-TTGGTAATTTTA
1 CAAATCAAGGGTATTTTGGTAATTTTACAAATCAGAGGGTATTCCT-GTAATTTTT
* * * * * *
58412765 CAAACCAA-GGTATTTCGGTAATTTTGCCAACCA-AGGGTATT-TTGGTAATTTTGT
1 CAAATCAAGGGTATTTTGGTAATTTTACAAATCAGAGGGTATTCCT-GTAATTTT-T
*
58412819 -AAACCAAGGGTATT
1 CAAATCAAGGGTATT
58412833 CAATAATTTT
Statistics
Matches: 336, Mismatches: 42, Indels: 53
0.78 0.10 0.12
Matches are distributed among these distances:
53 51 0.15
54 184 0.55
55 40 0.12
56 7 0.02
57 1 0.00
58 1 0.00
61 1 0.00
62 1 0.00
64 2 0.01
65 48 0.14
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (55 bp):
CAAATCAAGGGTATTTTGGTAATTTTACAAATCAGAGGGTATTCCTGTAATTTTT
Found at i:58412545 original size:38 final size:38
Alignment explanation
Indices: 58412502--58412574 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
58412492 GGGTATTTTG
*
58412502 GTAATTTTACAAATCGAGGGTATTTCGATAATTTTCCT
1 GTAATTTTACAAATCAAGGGTATTTCGATAATTTTCCT
* * *
58412540 GTAATTTTTCAAATCAAGGGTATTTTGGTAATTTT
1 GTAATTTTACAAATCAAGGGTATTTCGATAATTTT
58412575 ACAAATTGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (38 bp):
GTAATTTTACAAATCAAGGGTATTTCGATAATTTTCCT
Found at i:58412574 original size:65 final size:65
Alignment explanation
Indices: 58412470--58412601 Score: 255
Period size: 65 Copynumber: 2.0 Consensus size: 65
58412460 ATCAGAGGTG
58412470 TTCCTGTAATTTTTCAAATCAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGATAATT
1 TTCCTGTAATTTTTCAAATCAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGATAATT
*
58412535 TTCCTGTAATTTTTCAAATCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATT
1 TTCCTGTAATTTTTCAAATCAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGATAATT
58412600 TT
1 TT
58412602 GCAAGTCAAG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.45
Consensus pattern (65 bp):
TTCCTGTAATTTTTCAAATCAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGATAATT
Found at i:58412680 original size:81 final size:81
Alignment explanation
Indices: 58412540--58412816 Score: 314
Period size: 81 Copynumber: 3.4 Consensus size: 81
58412530 TAATTTTCCT
* * *
58412540 GTAATTTTTCAAATCA-AGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTTGC
1 GTAATTTTACAAATCAGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCG-TAATTTTAC
*
58412604 AAGTCAAGGGTATTTTG
65 AAGTCAAGGGTATTTAG
* * * *
58412621 GTAATTTTACAAGT-AGAGGGTATTTCGCTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTAC
1 GTAATTTTACAAATCAGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTC-GTAATTTTAC
* *
58412685 AGGTCGAGGGTATTTAG
65 AAGTCAAGGGTATTTAG
* *
58412702 GTAATTTCACAAATCAG-GGGTATTTTGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTA
1 GTAATTTTACAAATCAGAGGGTATTTTGGTAATTTTACAAATCGA-GGGTA-TTTCGTAATTTTA
** *
58412765 CAAACCAA-GGTATTTCG
64 CAAGTCAAGGGTATTTAG
* * *
58412782 GTAATTTTGCCAACCA-AGGGTATTTTGGTAATTTT
1 GTAATTTTACAAATCAGAGGGTATTTTGGTAATTTT
58412817 GTAAACCAAG
Statistics
Matches: 165, Mismatches: 25, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
80 40 0.24
81 119 0.72
82 6 0.04
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (81 bp):
GTAATTTTACAAATCAGAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGTAATTTTACA
AGTCAAGGGTATTTAG
Found at i:58412866 original size:53 final size:53
Alignment explanation
Indices: 58412637--58412859 Score: 178
Period size: 53 Copynumber: 4.2 Consensus size: 53
58412627 TTACAAGTAG
* * * * * * *** *
58412637 AGGGTATTTCGCTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAGGTCG
1 AGGGTATTTTGGTAATTTTACAA-ACCAAGGTATTTCAATAATTTTACAAACCA
* * * * *** *
58412691 AGGGTATTTAGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAATCA
1 AGGGTATTTTGGTAATTTTACAAACCA-AGGTATTTCAATAATTTTACAAACCA
* ** * *
58412745 GGGGTATTTTGGTAATTTTACAAACCAAGGTATTTCGGTAATTTTGCCAACCA
1 AGGGTATTTTGGTAATTTTACAAACCAAGGTATTTCAATAATTTTACAAACCA
** *
58412798 AGGGTATTTTGGTAATTTTGTAAACCAAGGGTA-TTCAATAATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCAA-GGTATTTCAATAATTTTACAAACCA
58412851 AGGGTATTT
1 AGGGTATTT
58412860 CAGTAATAGT
Statistics
Matches: 139, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
53 71 0.51
54 68 0.49
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.37
Consensus pattern (53 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGTATTTCAATAATTTTACAAACCA
Found at i:58415647 original size:23 final size:23
Alignment explanation
Indices: 58415619--58415662 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
58415609 AGTTAAGTGA
*
58415619 TTTGTGAATGTGATTGTGATAAT
1 TTTGTGAATGTGATTCTGATAAT
58415642 TTTGTGAATGTGATTCTGATA
1 TTTGTGAATGTGATTCTGATA
58415663 TGAATTGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.48
Consensus pattern (23 bp):
TTTGTGAATGTGATTCTGATAAT
Found at i:58424780 original size:27 final size:27
Alignment explanation
Indices: 58424750--58424803 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
58424740 TGGTGGTTTA
58424750 TCCACAACTATGTGTATTGGCAGCTTG
1 TCCACAACTATGTGTATTGGCAGCTTG
58424777 TCCACAACTATGTGTATTGGCAGCTTG
1 TCCACAACTATGTGTATTGGCAGCTTG
58424804 ACTGCAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (27 bp):
TCCACAACTATGTGTATTGGCAGCTTG
Found at i:58433858 original size:39 final size:40
Alignment explanation
Indices: 58433813--58433980 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
58433803 CGGGGTTTAG
* * *
58433813 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
58433852 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
58433892 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
58433932 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
58433973 CCGGATAT
1 CCGGATAT
58433981 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:58433963 original size:41 final size:40
Alignment explanation
Indices: 58433836--58433980 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
58433826 CTCGCACAAG
* * * * *
58433836 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
58433876 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
58433916 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
58433957 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
58433981 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:58435210 original size:38 final size:38
Alignment explanation
Indices: 58435168--58435243 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
58435158 CAAGAACTCC
58435168 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
58435206 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
58435244 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:58441916 original size:39 final size:40
Alignment explanation
Indices: 58441871--58442038 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
58441861 CGGGGTTTAG
* * *
58441871 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
58441910 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
58441950 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
58441990 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
58442031 CCGGATAT
1 CCGGATAT
58442039 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:58442021 original size:41 final size:40
Alignment explanation
Indices: 58441894--58442038 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
58441884 CTCGCACAAG
* * * * *
58441894 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
58441934 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
58441974 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
58442015 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
58442039 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:58443268 original size:38 final size:38
Alignment explanation
Indices: 58443226--58443301 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
58443216 CAAGAACTCC
58443226 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
58443264 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
58443302 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:58453091 original size:16 final size:17
Alignment explanation
Indices: 58453063--58453099 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
58453053 ATAAGAAAAG
58453063 TTTGGGATTTCGAGATT
1 TTTGGGATTTCGAGATT
58453080 TTTGGG-TTTCGAGATT
1 TTTGGGATTTCGAGATT
58453096 TTTG
1 TTTG
58453100 AGGCGTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.14, C:0.05, G:0.30, T:0.51
Consensus pattern (17 bp):
TTTGGGATTTCGAGATT
Found at i:58458284 original size:17 final size:18
Alignment explanation
Indices: 58458253--58458286 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
58458243 GGCTGAAATA
58458253 GGCCGTGTGGACCCCACG
1 GGCCGTGTGGACCCCACG
*
58458271 GGCC-TGTGGGCCCCAC
1 GGCCGTGTGGACCCCAC
58458287 ACGGGTAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.09, C:0.41, G:0.38, T:0.12
Consensus pattern (18 bp):
GGCCGTGTGGACCCCACG
Found at i:58458546 original size:27 final size:27
Alignment explanation
Indices: 58458516--58458611 Score: 156
Period size: 27 Copynumber: 3.6 Consensus size: 27
58458506 CCCTGGTTGA
58458516 TAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATATGG
* *
58458543 TAAAATAACTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATATGG
58458570 TAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGACTATTTTGCCCTTATATGG
* *
58458597 TAAGATGACTGTTTT
1 TAAAATGACTATTTT
58458612 TCTCTATGTG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.42
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATATGG
Found at i:58460031 original size:41 final size:41
Alignment explanation
Indices: 58459973--58460054 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
58459963 TAAAAGCCAC
*
58459973 CGGTGGATCCACAGTCGTCAAGCAACTACGCGATCCTCAAT
1 CGGTGGATCCACAGTCGTCAAGCAACCACGCGATCCTCAAT
*
58460014 CGGTGGATCCA-AGGTCGTCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACA-GTCGTCAAGCAACCACGCGATCCTCAAT
58460055 TTCTTCCTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (41 bp):
CGGTGGATCCACAGTCGTCAAGCAACCACGCGATCCTCAAT
Found at i:58460345 original size:27 final size:27
Alignment explanation
Indices: 58460319--58460800 Score: 195
Period size: 27 Copynumber: 17.4 Consensus size: 27
58460309 ATCTACAAAC
* * *
58460319 CAAGGGTATTCCGGTAATTTTGTAAAC
1 CAAGGGTATTTCGATAATTTTGTAAAT
* *
58460346 CAATGGTATTTCTATAATTTTCG-AAAGT
1 CAAGGGTATTTCGATAATTTT-GTAAA-T
*
58460374 CAAGGGTATTTCTATAATTTTGTAAAT
1 CAAGGGTATTTCGATAATTTTGTAAAT
* *
58460401 C-AGAGGTGTTCCTG-TAATTTT-TCAAAT
1 CAAG-GGTATTTC-GATAATTTTGT-AAAT
* * **
58460428 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGATAATTTTGTAAAT
*
58460455 CGAGGGTATTTCGATAATTTTCCTGTAATTTTTCAAAT
1 CAAGGGTATTTCGATAA-TTT--TG-------T-AAAT
* * **
58460493 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGATAATTTTGTAAAT
** * *
58460520 TGAGGGTATTTCGATAATTTTGCAAGT
1 CAAGGGTATTTCGATAATTTTGTAAAT
* * ** *
58460547 CAAGGGTATTTTGGTAATTTTACAAGT
1 CAAGGGTATTTCGATAATTTTGTAAAT
* ** *
58460574 -AGAGGGTATTTCGCTAATTTTACAAGT
1 CA-AGGGTATTTCGATAATTTTGTAAAT
* ** **
58460601 CGAGGGTATTTC-AGTAATTTTACAGGT
1 CAAGGGTATTTCGA-TAATTTTGTAAAT
* * * ***
58460628 CGAGGGTATTTAGGTAATTTCACAAAT
1 CAAGGGTATTTCGATAATTTTGTAAAT
* * **
58460655 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCGATAATTTTGTAAAT
* * * ** *
58460682 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCGATAATTTTGTAAAT
* * ** *
58460709 CAATGGTATTTCGGTAATTTTGCCAAC
1 CAAGGGTATTTCGATAATTTTGTAAAT
* * *
58460736 CAAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCGATAATTTTGTAAAT
* * *
58460763 CAAGGGTA-TTCAATAATTTTATAAAC
1 CAAGGGTATTTCGATAATTTTGTAAAT
58460789 CAAGGGTATTTC
1 CAAGGGTATTTC
58460801 AGTAATAGTA
Statistics
Matches: 368, Mismatches: 62, Indels: 50
0.77 0.13 0.10
Matches are distributed among these distances:
26 27 0.07
27 289 0.79
28 29 0.08
30 1 0.00
35 1 0.00
37 3 0.01
38 18 0.05
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGATAATTTTGTAAAT
Found at i:58460419 original size:55 final size:54
Alignment explanation
Indices: 58460314--58460448 Score: 139
Period size: 55 Copynumber: 2.5 Consensus size: 54
58460304 GGTAAATCTA
* * * *
58460314 CAAACCAAGGGTATTCCGGTAATTTTGTAAACCAATGGTATTTCTATAA-TTTT
1 CAAATCAAGGGTATTTCGATAATTTTGTAAACCAATGGTATTCCTATAATTTTT
* * * *
58460367 CGAAAGTCAAGGGTATTTCTATAATTTTGTAAATCAGA-GGTGTTCCTGTAATTTTT
1 C-AAA-TCAAGGGTATTTCGATAATTTTGTAAACCA-ATGGTATTCCTATAATTTTT
* *
58460423 CAAATCAAGGGTATTTTGGTAATTTT
1 CAAATCAAGGGTATTTCGATAATTTT
58460449 ACAAATCGAG
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
53 1 0.01
54 22 0.33
55 38 0.57
56 6 0.09
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (54 bp):
CAAATCAAGGGTATTTCGATAATTTTGTAAACCAATGGTATTCCTATAATTTTT
Found at i:58460448 original size:54 final size:55
Alignment explanation
Indices: 58460312--58460806 Score: 329
Period size: 54 Copynumber: 9.0 Consensus size: 55
58460302 TTGGTAAATC
* ** ** * * *
58460312 TACAAACCAAGGGTATTCCGGTAATTTTGTAAACCA-ATGGTATTTCTATAATTT
1 TACAAATCAAGGGTATTTTGGTAATTTTACAAATCAGAGGGTATTTCTGTAATTT
* ** * *
58460366 T-CGAAAGTCAAGGGTATTTCT-ATAATTTTGTAAATCAGA-GGTGTTCCTGTAATTT
1 TAC-AAA-TCAAGGGTATTT-TGGTAATTTTACAAATCAGAGGGTATTTCTGTAATTT
*
58460421 TTCAAATCAAGGGTATTTTGGTAATTTTACAAATC-GAGGGTATTTCGATAATTTTCCTGTAATT
1 TACAAATCAAGGGTATTTTGGTAATTTTACAAATCAGA-GG------G-T-A-TTT-CTGTAATT
58460485 T
55 T
* *
58460486 TTCAAATCAAGGGTATTTTGGTAATTTTACAAAT-TGAGGGTATTTC-GATAATTT
1 TACAAATCAAGGGTATTTTGGTAATTTTACAAATCAGAGGGTATTTCTG-TAATTT
* * *
58460540 TGCAAGTCAAGGGTATTTTGGTAATTTTACAAGT-AGAGGGTATTTC-GCTAATTT
1 TACAAATCAAGGGTATTTTGGTAATTTTACAAATCAGAGGGTATTTCTG-TAATTT
* * ** ** **
58460594 TACAAGTCGAGGGTATTTCAGTAATTTTACAGGTC-GAGGGTATTTAGGTAATTT
1 TACAAATCAAGGGTATTTTGGTAATTTTACAAATCAGAGGGTATTTCTGTAATTT
*
58460648 CACAAATCAAGGGTATTTTGGTAATTTTACAAATCAG-GGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTTGGTAATTTTACAAATCAGAGGGTATTTCT-GTAATTT
* * * * * *
58460702 TACAAACCAATGGTATTTCGGTAATTTTGCCAACCA-AGGGTATTT-TGGTAATTT
1 TACAAATCAAGGGTATTTTGGTAATTTTACAAATCAGAGGGTATTTCT-GTAATTT
** * *** * * *
58460756 TGTAAACCAAGGGTA-TTCAATAATTTTATAAACCA-AGGGTATTTCAGTAAT
1 TACAAATCAAGGGTATTTTGGTAATTTTACAAATCAGAGGGTATTTCTGTAAT
58460807 AGTAGCCTAC
Statistics
Matches: 367, Mismatches: 48, Indels: 53
0.78 0.10 0.11
Matches are distributed among these distances:
53 34 0.09
54 230 0.63
55 47 0.13
56 3 0.01
57 1 0.00
58 1 0.00
61 1 0.00
62 1 0.00
64 4 0.01
65 45 0.12
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (55 bp):
TACAAATCAAGGGTATTTTGGTAATTTTACAAATCAGAGGGTATTTCTGTAATTT
Found at i:58460484 original size:38 final size:38
Alignment explanation
Indices: 58460441--58460513 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
58460431 GGGTATTTTG
*
58460441 GTAATTTTACAAATCGAGGGTATTTCGATAATTTTCCT
1 GTAATTTTACAAATCAAGGGTATTTCGATAATTTTCCT
* * *
58460479 GTAATTTTTCAAATCAAGGGTATTTTGGTAATTTT
1 GTAATTTTACAAATCAAGGGTATTTCGATAATTTT
58460514 ACAAATTGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.45
Consensus pattern (38 bp):
GTAATTTTACAAATCAAGGGTATTTCGATAATTTTCCT
Found at i:58460513 original size:65 final size:65
Alignment explanation
Indices: 58460409--58460540 Score: 255
Period size: 65 Copynumber: 2.0 Consensus size: 65
58460399 ATCAGAGGTG
58460409 TTCCTGTAATTTTTCAAATCAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGATAATT
1 TTCCTGTAATTTTTCAAATCAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGATAATT
*
58460474 TTCCTGTAATTTTTCAAATCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATT
1 TTCCTGTAATTTTTCAAATCAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGATAATT
58460539 TT
1 TT
58460541 GCAAGTCAAG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.45
Consensus pattern (65 bp):
TTCCTGTAATTTTTCAAATCAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGATAATT
Found at i:58460619 original size:81 final size:80
Alignment explanation
Indices: 58460479--58460756 Score: 326
Period size: 81 Copynumber: 3.4 Consensus size: 80
58460469 TAATTTTCCT
* * *
58460479 GTAATTTTTCAAATCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTTGCA
1 GTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCG-TAATTTTACA
*
58460544 AGTCAAGGGTATTTTG
65 AGTCAAGGGTATTTAG
* * * *
58460560 GTAATTTTACAAGT-AGAGGGTATTTCGCTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTAC
1 GTAATTTTACAAATCA-AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTC-GTAATTTTAC
* *
58460624 AGGTCGAGGGTATTTAG
64 AAGTCAAGGGTATTTAG
* *
58460641 GTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTAC
1 GTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCGA-GGGTA-TTTCGTAATTTTAC
** * *
58460705 AAACCAATGGTATTTCG
64 AAGTCAAGGGTATTTAG
* * *
58460722 GTAATTTTGCCAACCAAGGGTATTTTGGTAATTTT
1 GTAATTTTACAAATCAAGGGTATTTTGGTAATTTT
58460757 GTAAACCAAG
Statistics
Matches: 166, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
80 2 0.01
81 159 0.96
82 5 0.03
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (80 bp):
GTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGTAATTTTACAA
GTCAAGGGTATTTAG
Found at i:58460770 original size:81 final size:80
Alignment explanation
Indices: 58460479--58460806 Score: 318
Period size: 81 Copynumber: 4.1 Consensus size: 80
58460469 TAATTTTCCT
** * *
58460479 GTAATTTTTCAAATCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTTGCA
1 GTAA-TTTTCAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAATAATTTTACA
** *
58460544 AGTCAAGGGTATTTTG
65 AACCAAGGGTATTTCG
* * * * * *
58460560 GTAATTTTACAAGT-AGAGGGTATTTCGCTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTAC
1 GTAATTTT-CAAATCA-AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAATAATTTTAC
*** * *
58460624 AGGTCGAGGGTATTTAG
64 AAACCAAGGGTATTTCG
* * ***
58460641 GTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACA
1 GTAATTT-TCAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAATAATTTTACA
*
58460706 AACCAATGGTATTTCG
65 AACCAAGGGTATTTCG
* * ** * *
58460722 GTAATTTTGCCAACCAAGGGTATTTTGGTAATTTTGTAAACCAAGGGTA-TTCAATAATTTTATA
1 GTAATTTT-CAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAATAATTTTACA
*
58460786 AACCAAGGGTATTTCA
65 AACCAAGGGTATTTCG
58460802 GTAAT
1 GTAAT
58460807 AGTAGCCTAC
Statistics
Matches: 203, Mismatches: 39, Indels: 11
0.80 0.15 0.04
Matches are distributed among these distances:
80 35 0.17
81 167 0.82
82 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (80 bp):
GTAATTTTCAAATCAAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAATAATTTTACAA
ACCAAGGGTATTTCG
Found at i:58460787 original size:26 final size:27
Alignment explanation
Indices: 58460479--58460806 Score: 282
Period size: 27 Copynumber: 12.2 Consensus size: 27
58460469 TAATTTTCCT
* * *
58460479 GTAATTTTTCAAATCAAGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTCG
***
58460506 GTAATTTTACAAATTGAGGGTATTTCG
1 GTAATTTTACAAACCAAGGGTATTTCG
* * ** *
58460533 ATAATTTTGCAAGTCAAGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTCG
**
58460560 GTAATTTTAC-AAGTAGAGGGTATTTCG
1 GTAATTTTACAAACCA-AGGGTATTTCG
* ** * *
58460587 CTAATTTTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAAACCAAGGGTATTTCG
*** * *
58460614 GTAATTTTACAGGTCGAGGGTATTTAG
1 GTAATTTTACAAACCAAGGGTATTTCG
* * *
58460641 GTAATTTCACAAATCAAGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTCG
* * *
58460668 GTAATTTTACAAATCAGGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTCG
*
58460695 GTAATTTTACAAACCAATGGTATTTCG
1 GTAATTTTACAAACCAAGGGTATTTCG
* * *
58460722 GTAATTTTGCCAACCAAGGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTCG
** *
58460749 GTAATTTTGTAAACCAAGGGTA-TTCA
1 GTAATTTTACAAACCAAGGGTATTTCG
* * *
58460775 ATAATTTTATAAACCAAGGGTATTTCA
1 GTAATTTTACAAACCAAGGGTATTTCG
58460802 GTAAT
1 GTAAT
58460807 AGTAGCCTAC
Statistics
Matches: 250, Mismatches: 48, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
26 24 0.10
27 225 0.90
28 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACCAAGGGTATTTCG
Found at i:58559206 original size:40 final size:40
Alignment explanation
Indices: 58559097--58559315 Score: 279
Period size: 40 Copynumber: 5.6 Consensus size: 40
58559087 TATTCGGATA
* *
58559097 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
58559137 A-ATTCCGGGCTAAGT-CCGAAGGCAATTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
58559176 ATAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
58559216 ATGACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
58559256 ATGACCGGGCTAAGT-CCGAAGGCATTTGGGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
58559295 ATATCC-GGCTAA-ACCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
58559316 TACTTGGTTG
Statistics
Matches: 161, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 15 0.09
39 57 0.35
40 89 0.55
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:58559230 original size:79 final size:80
Alignment explanation
Indices: 58559097--58559290 Score: 286
Period size: 79 Copynumber: 2.5 Consensus size: 80
58559087 TATTCGGATA
* *
58559097 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGT-CCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCA
58559161 ATTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * *
58559176 ATAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATGACCGGGTTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGTCCCGAAGGC
*
58559240 ATTTGTGCGAGTTACT
65 AATTGTGCGAGTTACT
* *
58559256 ATGACCGGGCTAAGT-CCGAAGGCATTTGGGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
58559291 AGCTATATCC
Statistics
Matches: 104, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
78 2 0.02
79 66 0.63
80 36 0.35
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTACT
Found at i:58561778 original size:43 final size:43
Alignment explanation
Indices: 58561609--58561779 Score: 195
Period size: 43 Copynumber: 4.0 Consensus size: 43
58561599 CATAGGATTT
* * *
58561609 TCGATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCA
* * * *
58561652 TCGACATGTGATTACATGTAAGACCATGTCTGGGACATCGACA
1 TCGATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCA
* * *
58561695 TCG-TATTTGATT-CGTGTAAGACC-CTGTCTGGGACAGTGGCA
1 TCGATATGTGATTACATGTAAGACCAC-GTCTGGGACATTGGCA
* **
58561736 TCGATATGTGATTACATGTAAGACCACATCTAAGACATTGGCA
1 TCGATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCA
58561779 T
1 T
58561780 TGTACGATAT
Statistics
Matches: 104, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
41 26 0.25
42 15 0.14
43 62 0.60
44 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
TCGATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCA
Found at i:58561957 original size:16 final size:16
Alignment explanation
Indices: 58561933--58561963 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58561923 TGGTTATTTG
*
58561933 ATATGTGATACAAATT
1 ATATATGATACAAATT
58561949 ATATATGATACAAAT
1 ATATATGATACAAAT
58561964 GAAAATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (16 bp):
ATATATGATACAAATT
Found at i:58564763 original size:18 final size:17
Alignment explanation
Indices: 58564740--58564774 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
58564730 TAATAATTCT
58564740 AAAAAAATTCAACTAAAA
1 AAAAAAATTCAAC-AAAA
*
58564758 AAAAAACTTCAACAAAA
1 AAAAAAATTCAACAAAA
58564775 TATAAAGTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAAAAATTCAACAAAA
Found at i:58571496 original size:14 final size:15
Alignment explanation
Indices: 58571462--58571497 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
58571452 TTTTGCCAAT
58571462 AAAAT-ATTTTTTAG
1 AAAATAATTTTTTAG
58571476 AAAATAATTTTTTA-
1 AAAATAATTTTTTAG
58571490 AAAATAAT
1 AAAATAAT
58571498 ATGATTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (15 bp):
AAAATAATTTTTTAG
Found at i:58573597 original size:55 final size:53
Alignment explanation
Indices: 58573535--58573789 Score: 245
Period size: 55 Copynumber: 4.8 Consensus size: 53
58573525 ATTAGAGTTT
58573535 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGGTAAGGCTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAAT-GGTAA-G-TTCATAAGGC
* ** * **
58573590 AAGGATACCATGTAAGACCATGTCAATTCATGGCATTTTTAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTT-C-ATAAGGC
* * *
58573645 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCATAAGGC
* * *
58573698 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCAT-AAGGC
** * * *
58573747 AAGGATATTACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAG
58573790 GTACCCGTGT
Statistics
Matches: 169, Mismatches: 25, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
49 37 0.22
51 1 0.01
52 8 0.05
53 43 0.25
54 4 0.02
55 72 0.43
56 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATGGTAAGTTCATAAGGC
Found at i:58573741 original size:108 final size:110
Alignment explanation
Indices: 58573542--58573742 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
58573532 TTTAAGGATA
58573542 CCATGTAAGACCATGCCAAGGCATGGCAATGGGTAAGGCTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATGGGTAAGGCTTCTAAGGCAAGGATACCATGTAAGA
** * **
58573607 CCATGTCAATTCATGGCATTTTTAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGGTAAGTTACTATAAGGCAAAGGTC
* *
58573652 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATGGGTAAGGCTTC-TAAGGCAAGGATACCATGTAAG
*
58573714 ACCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGGTAAGTT
58573743 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 46 0.56
109 6 0.07
110 27 0.33
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATGGGTAAGGCTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGGTAAGTTACTATAAGGCAAAGGTC
Found at i:58574002 original size:16 final size:16
Alignment explanation
Indices: 58573981--58574011 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58573971 ATAAATTTGA
58573981 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
58573997 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
58574012 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:58578220 original size:26 final size:27
Alignment explanation
Indices: 58578191--58578244 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
58578181 AGAAGTGCCG
*
58578191 AATATTCACTGA-TCACAAAAG-TTTGA
1 AATATTCAATGACTCA-AAAAGATTTGA
*
58578217 AATATTTAATGACTCAAAAAGATTTGA
1 AATATTCAATGACTCAAAAAGATTTGA
58578244 A
1 A
58578245 CTTGAGGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.31
Consensus pattern (27 bp):
AATATTCAATGACTCAAAAAGATTTGA
Found at i:58581195 original size:55 final size:53
Alignment explanation
Indices: 58581108--58581299 Score: 198
Period size: 53 Copynumber: 3.7 Consensus size: 53
58581098 ATTAGGGTTT
*
58581108 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGACAAGACATGGCATTGATAAGTT-C-ATAAGGC
* * * *
58581163 AAAGG-TCCCATGTAAGACCATGACAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGACAAGACATGGCATTGATAAGTTCATAAGGC
*** * *
58581216 AAGGATACCATGTAAGACCATGTTGAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGACAAGACATGGCATTGATAAGTTCAT-AAGGC
* *
58581265 AAGGATACCACGTAAGACCATGACAAGTCATGGCA
1 AAGGATACCATGTAAGACCATGACAAGACATGGCA
58581300 ATGGTAAGGT
Statistics
Matches: 117, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
49 30 0.26
51 1 0.01
52 6 0.05
53 40 0.34
54 1 0.01
55 35 0.30
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGACAAGACATGGCATTGATAAGTTCATAAGGC
Found at i:58581297 original size:49 final size:50
Alignment explanation
Indices: 58581108--58581307 Score: 163
Period size: 49 Copynumber: 3.9 Consensus size: 50
58581098 ATTAGGGTTT
* * * *
58581108 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGG
1 AAGGATACCACGTAAGACCATGACAAGACATGGCAATGGTAAGTT-C-A-AA-G
* * * * *
58581162 CAAAGG-TCCCATGTAAGACCATGACAAGGCATGGCATTGGTGAGTTCATAAGG
1 --AAGGATACCACGTAAGACCATGACAAGACATGGCAATGGTAAGTTCA-AA-G
* ***
58581215 CAAGGATACCATGTAAGACCATGTTGAGACATGGCAATGGTAAGTTTC-AA-
1 -AAGGATACCACGTAAGACCATGACAAGACATGGCAATGGTAAG-TTCAAAG
*
58581265 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCACGTAAGACCATGACAAGACATGGCAATGGTAAG
58581308 GTACCCGTGT
Statistics
Matches: 124, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
49 38 0.31
52 6 0.05
53 37 0.30
54 4 0.03
55 35 0.28
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (50 bp):
AAGGATACCACGTAAGACCATGACAAGACATGGCAATGGTAAGTTCAAAG
Found at i:58581519 original size:15 final size:16
Alignment explanation
Indices: 58581499--58581528 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
58581489 ATAAATTTGA
58581499 TTAAGTAAGT-AGTAT
1 TTAAGTAAGTGAGTAT
58581514 TTAAGTAAGTGAGTA
1 TTAAGTAAGTGAGTA
58581529 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (16 bp):
TTAAGTAAGTGAGTAT
Found at i:58583476 original size:27 final size:26
Alignment explanation
Indices: 58583445--58583622 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
58583435 TAAATTGTAC
58583445 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
58583472 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
58583498 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
58583526 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
58583554 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
58583581 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
58583608 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58583623 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:58583561 original size:82 final size:81
Alignment explanation
Indices: 58583446--58583601 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
58583436 AAATTGTACA
* *
58583446 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
58583510 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
58583527 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
58583592 TGCGAGTTGA
65 TGCGAATTGA
58583602 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:58583613 original size:82 final size:81
Alignment explanation
Indices: 58583442--58583622 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
58583432 GATTAAATTG
* *
58583442 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
58583507 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
58583523 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
58583587 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
58583605 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
58583623 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:58583633 original size:27 final size:27
Alignment explanation
Indices: 58583527--58583633 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
58583517 TGACCATGCG
* * * *
58583527 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
58583555 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
58583582 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
58583609 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
58583634 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:58591442 original size:27 final size:26
Alignment explanation
Indices: 58591411--58591588 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
58591401 TAAATTGTAC
58591411 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
58591438 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
58591464 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
58591492 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
58591520 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
58591547 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
58591574 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58591589 GCTCAATATA
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.80
28 25 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:58591527 original size:82 final size:81
Alignment explanation
Indices: 58591412--58591567 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
58591402 AAATTGTACA
* *
58591412 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
58591476 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
58591493 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
58591558 TGCGAGTTGA
65 TGCGAATTGA
58591568 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:58591579 original size:82 final size:81
Alignment explanation
Indices: 58591408--58591588 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
58591398 GATTAAATTG
* *
58591408 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
58591473 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
58591489 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
58591553 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
58591571 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
58591589 GCTCAATATA
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:58599485 original size:12 final size:13
Alignment explanation
Indices: 58599468--58599502 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
58599458 GCAACCTAAG
58599468 GGGAAGGGGAA-A
1 GGGAAGGGGAAGA
58599480 GGGAAGGGGAAGA
1 GGGAAGGGGAAGA
*
58599493 GGAAAGGGGA
1 GGGAAGGGGA
58599503 GAAAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (13 bp):
GGGAAGGGGAAGA
Found at i:58599488 original size:18 final size:18
Alignment explanation
Indices: 58599465--58599500 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
58599455 TTTGCAACCT
*
58599465 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGAGGAAAGGG
58599483 AAGGGGAAGAGGAAAGGG
1 AAGGGGAAGAGGAAAGGG
58599501 GAGAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGAGGAAAGGG
Found at i:58600895 original size:13 final size:13
Alignment explanation
Indices: 58600877--58600909 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
58600867 GCACAAGGAC
58600877 GTGTGACACAACT
1 GTGTGACACAACT
58600890 GTGTGACACAACT
1 GTGTGACACAACT
58600903 GTGTGAC
1 GTGTGAC
58600910 CCTACTCAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (13 bp):
GTGTGACACAACT
Found at i:58602637 original size:11 final size:11
Alignment explanation
Indices: 58602623--58602672 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
58602613 AGATAAATAT
58602623 TATTTTATTAA
1 TATTTTATTAA
*
58602634 TATTTTAATGAGA
1 TATTTT-ATTA-A
58602647 TA-TTTATTAA
1 TATTTTATTAA
*
58602657 TATTTTATTAT
1 TATTTTATTAA
58602668 TATTT
1 TATTT
58602673 ATTTAGTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 3 0.09
11 21 0.64
12 6 0.18
13 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:58604440 original size:32 final size:32
Alignment explanation
Indices: 58604344--58604456 Score: 131
Period size: 33 Copynumber: 3.5 Consensus size: 32
58604334 TACCTAAAAG
* *
58604344 GTACAACTGGAAAAGGAAATGTACACTGTGTGT
1 GTACAACTTGAAAAGGAAATGTACCCT-TGTGT
* * *
58604377 GTACAACTTAAAAAGGAAACGTACACTTTGTGT
1 GTACAACTTGAAAAGGAAATGTAC-CCTTGTGT
58604410 GTAC-ACTTGAAAAGGAAATGTACGCCTTGTGT
1 GTACAACTTGAAAAGGAAATGTAC-CCTTGTGT
58604442 GTACAA-TGTGAAAAG
1 GTACAACT-TGAAAAG
58604457 TGGTAGCTTC
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
32 29 0.43
33 38 0.56
34 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (32 bp):
GTACAACTTGAAAAGGAAATGTACCCTTGTGT
Found at i:58604486 original size:31 final size:31
Alignment explanation
Indices: 58604449--58604595 Score: 235
Period size: 31 Copynumber: 4.7 Consensus size: 31
58604439 TGTGTACAAT
58604449 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
58604480 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
58604511 GTGAAAAGTAGTAGCTTCGGCTACCTGA-CTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATC-A
*
58604542 GTGAAAAGTGGTAGC-TCTAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTC-GGCTACCTGATCA
*
58604573 GTGAATAGTGGTAGCTTCGGCTA
1 GTGAAAAGTGGTAGCTTCGGCTA
58604596 AAAGTGACAA
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
30 3 0.03
31 101 0.94
32 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:58604518 original size:62 final size:62
Alignment explanation
Indices: 58604449--58604629 Score: 240
Period size: 62 Copynumber: 2.9 Consensus size: 62
58604439 TGTGTACAAT
*
58604449 GTGAAAAGTGGTAGCTTCGGCTACCTGA-TCAGTGAAAAGTGGTAGCT-TCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGACT-AGTGAAAAGTGGTAGCTCT-AGCTACCTGATCA
*
58604511 GTGAAAAGTAGTAGCTTCGGCTACCTGACTAGTGAAAAGTGGTAGCTCTAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGACTAGTGAAAAGTGGTAGCTCTAGCTACCTGATCA
* ** * * *
58604573 GTGAATAGTGGTAGCTTCGGCTAAAAGTGACAAGTGATAAGTGGTAGCTTTAGCTAC
1 GTGAAAAGTGGTAGCTTCGGCT--ACCTGACTAGTGAAAAGTGGTAGCTCTAGCTAC
58604630 ACTTATCTAA
Statistics
Matches: 106, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
62 76 0.72
63 2 0.02
64 28 0.26
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (62 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGACTAGTGAAAAGTGGTAGCTCTAGCTACCTGATCA
Found at i:58604717 original size:27 final size:27
Alignment explanation
Indices: 58604686--58604750 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
58604676 TAGTTGAACT
*
58604686 ATGGCAAAGTGATAAAGTGTGCCAATC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
*
58604713 ATGGCAAAGTGATATAGTGTGCCAAAC
1 ATGGCAAAGTGATAAAGTGTGCCAAAC
*
58604740 ATAGCAAAGTG
1 ATGGCAAAGTG
58604751 TTCAGTGATC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (27 bp):
ATGGCAAAGTGATAAAGTGTGCCAAAC
Found at i:58620292 original size:36 final size:36
Alignment explanation
Indices: 58620252--58620326 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
58620242 ACTTGCCATC
58620252 TACCACGATACTACCATCCTTGAACAAACCCAATCT
1 TACCACGATACTACCATCCTTGAACAAACCCAATCT
58620288 TACCACGATACTACCATCCTTGAACAAACCCAATCT
1 TACCACGATACTACCATCCTTGAACAAACCCAATCT
58620324 TAC
1 TAC
58620327 AAACATAACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.36, C:0.36, G:0.05, T:0.23
Consensus pattern (36 bp):
TACCACGATACTACCATCCTTGAACAAACCCAATCT
Found at i:58625970 original size:9 final size:9
Alignment explanation
Indices: 58625958--58625983 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
58625948 ATTGTTATCA
58625958 TTATTATTT
1 TTATTATTT
58625967 TTATTATTT
1 TTATTATTT
58625976 TTATTATT
1 TTATTATT
58625984 ATTTTTGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTATTATTT
Found at i:58632081 original size:41 final size:41
Alignment explanation
Indices: 58632024--58632107 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
58632014 CCACCCGCTG
* *
58632024 TAAAGTGTATACACTGCCGGGGTTACTAATTGATAATAGAT
1 TAAAGGGTATACACTGCCGGGGGTACTAATTGATAATAGAT
58632065 TAAAGGGTATACACTGCCGGGGGTACTAATTGATAATAGAT
1 TAAAGGGTATACACTGCCGGGGGTACTAATTGATAATAGAT
58632106 TA
1 TA
58632108 GCCCTAAATG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.30
Consensus pattern (41 bp):
TAAAGGGTATACACTGCCGGGGGTACTAATTGATAATAGAT
Found at i:58637805 original size:45 final size:45
Alignment explanation
Indices: 58637691--58637944 Score: 156
Period size: 45 Copynumber: 5.6 Consensus size: 45
58637681 AATTATGGTG
* * ** **
58637691 AATCTTATCTCCCTGAAGTTGCAATGAAGCAGATTGAAGCCA-CA
1 AATCTTATTTCCCTGAAGTTGCAGTGAAGCAGCCTGAAGAAAGCA
* * * **
58637735 AACCTTATCTCCCTAAAGTTGCAGTGAAGCAGGTTGAAGAAAGCA
1 AATCTTATTTCCCTGAAGTTGCAGTGAAGCAGCCTGAAGAAAGCA
* * * * *
58637780 AGTCTTATATT-CCTGAAGTTACAGTGGAGTAGCCTGAAGATAGCA
1 AATCTTAT-TTCCCTGAAGTTGCAGTGAAGCAGCCTGAAGAAAGCA
*** * *
58637825 AATCTTATTTCCCTGAAGTTGCAGTGGAA-CATATTAAAGCTACAAACTA
1 AATCTTATTTCCCTGAAGTTGCAGT-GAAGCAGCCTGAAG--A-AAGC-A
* * * * * *
58637874 AATCTTATTTTCCTGAAGTTGCAATGGAGTAGACTAAAGATAA-CA
1 AATCTTATTTCCCTGAAGTTGCAGTGAAGCAGCCTGAAGA-AAGCA
* *
58637919 AATCTTATTTCCCTAAAGTTGAAGTG
1 AATCTTATTTCCCTGAAGTTGCAGTG
58637945 GAATAGATTA
Statistics
Matches: 164, Mismatches: 37, Indels: 17
0.75 0.17 0.08
Matches are distributed among these distances:
44 38 0.23
45 83 0.51
46 4 0.02
47 4 0.02
48 4 0.02
49 31 0.19
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (45 bp):
AATCTTATTTCCCTGAAGTTGCAGTGAAGCAGCCTGAAGAAAGCA
Found at i:58637889 original size:49 final size:48
Alignment explanation
Indices: 58637823--58638012 Score: 233
Period size: 49 Copynumber: 4.0 Consensus size: 48
58637813 CTGAAGATAG
*
58637823 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACATATTAAAGCTACAAA
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAA
* * ** * *
58637871 CTAAATCTTATTTTCCTGAAGTTGCAATGGAGTAGACTAAAG--A-TAA
1 C-AAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAA
* * *
58637917 CAAATCTTATTTCCCTAAAGTTGAAGTGGAATAGATTAAAGCTACAAA
1 CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAA
* *
58637965 CCAAATCTTATTTCCCTGAAGTCGCAGTGGAGCAGATTAAAGCTACAA
1 -CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAA
58638013 GTCTATCCAT
Statistics
Matches: 118, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
45 34 0.29
46 3 0.03
47 2 0.02
48 3 0.03
49 76 0.64
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.29
Consensus pattern (48 bp):
CAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAA
Found at i:58637902 original size:94 final size:94
Alignment explanation
Indices: 58637782--58638006 Score: 315
Period size: 94 Copynumber: 2.4 Consensus size: 94
58637772 AGAAAGCAAG
* * * * * * *
58637782 TCTTATATTCCTGAAGTTACAGTGGAGTAGCCTGAAGATAGCAAATCTTATTTCCCTGAAGTTGC
1 TCTTATTTTCCTGAAGTTGCAGTGGAGTAGACTAAAGATAACAAATCTTATTTCCCTAAAGTTGA
* *
58637847 AGTGGAACATATTAAAGCTACAAACTAAA
66 AGTGGAACAGATTAAAGCTACAAACCAAA
*
58637876 TCTTATTTTCCTGAAGTTGCAATGGAGTAGACTAAAGATAACAAATCTTATTTCCCTAAAGTTGA
1 TCTTATTTTCCTGAAGTTGCAGTGGAGTAGACTAAAGATAACAAATCTTATTTCCCTAAAGTTGA
*
58637941 AGTGGAATAGATTAAAGCTACAAACCAAA
66 AGTGGAACAGATTAAAGCTACAAACCAAA
* * * *
58637970 TCTTATTTCCCTGAAGTCGCAGTGGAGCAGATTAAAG
1 TCTTATTTTCCTGAAGTTGCAGTGGAGTAGACTAAAG
58638007 CTACAAGTCT
Statistics
Matches: 115, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 115 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (94 bp):
TCTTATTTTCCTGAAGTTGCAGTGGAGTAGACTAAAGATAACAAATCTTATTTCCCTAAAGTTGA
AGTGGAACAGATTAAAGCTACAAACCAAA
Found at i:58638085 original size:44 final size:43
Alignment explanation
Indices: 58637989--58638089 Score: 141
Period size: 43 Copynumber: 2.3 Consensus size: 43
58637979 CCTGAAGTCG
* * *
58637989 CAGTGGAGCAGATTAAAGCTACAAGTCTATCCATCTGAAGTTG
1 CAGTGGAGTAGATTAAAGCTACAAGTCTATCCATCTGAAATTA
*
58638032 CAGTGGAGTAGATTAAAGCTAGAAGTCTAGTCTC-TCTGAAATTA
1 CAGTGGAGTAGATTAAAGCTACAAGTCTA-TC-CATCTGAAATTA
58638076 CAGTGGAGTAGATT
1 CAGTGGAGTAGATT
58638090 GAAACACTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
43 27 0.52
44 24 0.46
45 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (43 bp):
CAGTGGAGTAGATTAAAGCTACAAGTCTATCCATCTGAAATTA
Found at i:58644709 original size:51 final size:50
Alignment explanation
Indices: 58644632--58644814 Score: 199
Period size: 51 Copynumber: 3.6 Consensus size: 50
58644622 CGGATACCCG
* *
58644632 GTGGCCTGCACATAGTACCACCCTTGTAGTCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCAAAGCTACCTTCTTCACAAA
* * *
58644683 GTGGCCTTCACATAGTACCACACTTGTGACCAAAACTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTG-TCAAAGCTA-CCTTCTTCACAAA
* * * * * *
58644735 GTGTCCTTCACATAGTACTC-CACTTGTGACCAAGCTATC-TCTACTCAAA
1 GTGGCCTTCACATAGTAC-CACACTTGTGTCAAAGCTACCTTCTTCACAAA
* *
58644784 GTAGCCTTCACATAGTACCACACTTGAGTCA
1 GTGGCCTTCACATAGTACCACACTTGTGTCA
58644815 CTAGTGACAT
Statistics
Matches: 110, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
48 1 0.01
49 32 0.29
50 1 0.01
51 38 0.35
52 37 0.34
53 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (50 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCAAAGCTACCTTCTTCACAAA
Found at i:58644743 original size:52 final size:50
Alignment explanation
Indices: 58644635--58644809 Score: 205
Period size: 52 Copynumber: 3.5 Consensus size: 50
58644625 ATACCCGGTG
* * * *
58644635 GCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTTCACAAAGT
1 GCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAAAGT
*
58644685 GGCCTTCACATAGTACCACACTTGTGACCAAAACTATCTTTCTTCACAAAGT
1 -GCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAAAGT
* *
58644737 GTCCTTCACATAGTACTC-CACTTGTGACC-AAGCTATC-TCTACTCAAAGT
1 G-CCTTCACATAGTAC-CACACTTGTGACCAAAGCTATCTTCTTCACAAAGT
58644786 AGCCTTCACATAGTACCACACTTG
1 -GCCTTCACATAGTACCACACTTG
58644810 AGTCACTAGT
Statistics
Matches: 110, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
48 1 0.01
49 30 0.27
50 1 0.01
51 38 0.35
52 39 0.35
53 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.28
Consensus pattern (50 bp):
GCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAAGT
Found at i:58652568 original size:49 final size:49
Alignment explanation
Indices: 58652512--58652679 Score: 205
Period size: 49 Copynumber: 3.4 Consensus size: 49
58652502 GTATGCATAC
* *
58652512 TAGCCTGCACTTAGCACTACACATGCGGCCAATTATTC-GGTACACGTAG
1 TAGCCTGCACTTAGTACTACACATGCGACCAATTA-TCGGGTACACGTAG
* * * * *
58652561 TAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAG
1 TAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCGGGTACACGTAG
* *
58652612 TAGCCTACACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAG
1 TAGCCTGCACTTAGTACTACACATGCGACCAATTATCGGGTACACGTAG
58652661 TAG-CTAGCACTTAGTACTA
1 TAGCCT-GCACTTAGTACTA
58652680 TACACGTGAC
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
48 2 0.02
49 53 0.53
50 8 0.08
51 37 0.37
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (49 bp):
TAGCCTGCACTTAGTACTACACATGCGACCAATTATCGGGTACACGTAG
Found at i:58652636 original size:100 final size:100
Alignment explanation
Indices: 58652506--58652688 Score: 289
Period size: 100 Copynumber: 1.8 Consensus size: 100
58652496 TATCTAGTAT
* *
58652506 GCATACTAGCCTGCACTTAGCACTACACATGCGGCCAATTAT-TCGGTACACGTAGTAGCCT-GC
1 GCATACTAGCCTACACTTAGCACTACACATGCGACCAATTATCT-GGTACACGTAGTAG-CTAGC
58652569 ACTTAGTACTACACACGTGATCGAAGTTATCGGGTAC
64 ACTTAGTACTACACACGTGATCGAAGTTATCGGGTAC
* *
58652606 GCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCTAGCAC
1 GCATACTAGCCTACACTTAGCACTACACATGCGACCAATTATCTGGTACACGTAGTAGCTAGCAC
*
58652671 TTAGTACTATACACGTGA
66 TTAGTACTACACACGTGA
58652689 CCTTACAATA
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
99 2 0.03
100 73 0.96
101 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (100 bp):
GCATACTAGCCTACACTTAGCACTACACATGCGACCAATTATCTGGTACACGTAGTAGCTAGCAC
TTAGTACTACACACGTGATCGAAGTTATCGGGTAC
Found at i:58652847 original size:51 final size:49
Alignment explanation
Indices: 58652783--58652905 Score: 156
Period size: 49 Copynumber: 2.5 Consensus size: 49
58652773 CATAGTCCTT
* * * *
58652783 CACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTG
1 CACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAGCCTA
* * * *
58652834 CACTTACTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTA
1 CACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTA
58652883 CACTTAGTACTACACACGTGACC
1 CACTTAGTACTACACACGTGACC
58652906 TCACAATAGA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 40 0.66
50 3 0.05
51 18 0.30
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
CACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTA
Found at i:58652939 original size:215 final size:215
Alignment explanation
Indices: 58652568--58652997 Score: 772
Period size: 215 Copynumber: 2.0 Consensus size: 215
58652558 TAGTAGCCTG
*
58652568 CACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTACACTTAGTACTACA
1 CACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTACACTTACTACTACA
* * *
58652633 CATGCGACCAATTATCTGGTACACGTAGTAGCTAGCACTTAGTACTATACACGTGACCTTACAAT
66 CATGCGACCAATTATCCGGTACACGTAGTAGCTAGCACTTAGTACTACACACGTGACCTCACAAT
*
58652698 AGATCATTCATATTGTTTCTATTCCGAAGGCTCAACCGGGAAATTCCTCAATTTCCAACATGTTA
131 AGATCATTCATATCGTTTCTATTCCGAAGGCTCAACCGGGAAATTCCTCAATTTCCAACATGTTA
58652763 CAAATTTATTCATAGTCCTT
196 CAAATTTATTCATAGTCCTT
*
58652783 CACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACTTACTACTACA
1 CACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTACACTTACTACTACA
58652848 CATGCGACCAATTATCCGGTACACGTAGTAGCCTA-CACTTAGTACTACACACGTGACCTCACAA
66 CATGCGACCAATTATCCGGTACACGTAGTAG-CTAGCACTTAGTACTACACACGTGACCTCACAA
* *
58652912 TAGATCATTCGTATCGTTTCTATTCCGAAGGCTCAACCGGGAAATTCCTCACTTTCCAACATGTT
130 TAGATCATTCATATCGTTTCTATTCCGAAGGCTCAACCGGGAAATTCCTCAATTTCCAACATGTT
58652977 ACAAATTTATTCATAGTCCTT
195 ACAAATTTATTCATAGTCCTT
58652998 TTTCAATTTG
Statistics
Matches: 206, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
215 203 0.99
216 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (215 bp):
CACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTACACTTACTACTACA
CATGCGACCAATTATCCGGTACACGTAGTAGCTAGCACTTAGTACTACACACGTGACCTCACAAT
AGATCATTCATATCGTTTCTATTCCGAAGGCTCAACCGGGAAATTCCTCAATTTCCAACATGTTA
CAAATTTATTCATAGTCCTT
Done.