Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 187 of 213
Found at i:56339338 original size:7 final size:7
Alignment explanation
Indices: 56339326--56339411 Score: 63
Period size: 7 Copynumber: 11.9 Consensus size: 7
56339316 TTAATATCCA
56339326 AATAAAT
1 AATAAAT
56339333 AATAAAT
1 AATAAAT
56339340 AATAAAAT
1 AAT-AAAT
56339348 AAAATAAAAT
1 --AAT-AAAT
56339358 AATAAAGT
1 AATAAA-T
56339366 AATAAAT
1 AATAAAT
*
56339373 AAAGTAAAG
1 -AA-TAAAT
*
56339382 AA-AGA-
1 AATAAAT
56339387 AA-AAAT
1 AATAAAT
56339393 AATAAAT
1 AATAAAT
56339400 AATAAA-
1 AATAAAT
56339406 AATAAA
1 AATAAA
56339412 AATTGGGTTG
Statistics
Matches: 68, Mismatches: 3, Indels: 17
0.77 0.03 0.19
Matches are distributed among these distances:
5 4 0.06
6 10 0.15
7 24 0.35
8 18 0.26
9 4 0.06
10 8 0.12
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (7 bp):
AATAAAT
Found at i:56339363 original size:25 final size:25
Alignment explanation
Indices: 56339325--56339380 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
56339315 ATTAATATCC
56339325 AAAT-AAATAATAAA-TAATAAAATA
1 AAATAAAATAATAAAGTAAT-AAATA
56339349 AAATAAAATAATAAAGTAATAAATA
1 AAATAAAATAATAAAGTAATAAATA
*
56339374 AAGTAAA
1 AAATAAA
56339381 GAAAGAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 4 0.14
25 21 0.72
26 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (25 bp):
AAATAAAATAATAAAGTAATAAATA
Found at i:56342500 original size:9 final size:8
Alignment explanation
Indices: 56342481--56342505 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
56342471 TACGTTCCTG
56342481 AAAAAATA
1 AAAAAATA
56342489 AAAAAATA
1 AAAAAATA
56342497 AAAAAATA
1 AAAAAATA
56342505 A
1 A
56342506 TAGAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAATA
Found at i:56343378 original size:15 final size:14
Alignment explanation
Indices: 56343357--56343392 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
56343347 ATAATCCTTA
56343357 ATAATTATCTCAAT
1 ATAATTATCTCAAT
*
56343371 ATTAATTATCTTAAT
1 A-TAATTATCTCAAT
56343386 ATAATTA
1 ATAATTA
56343393 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCTCAAT
Found at i:56345067 original size:31 final size:31
Alignment explanation
Indices: 56345031--56345094 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
56345021 TTTTATCCCA
56345031 ACACTTTTCACTTTCTTACAATCTAGTCAAT
1 ACACTTTTCACTTTCTTACAATCTAGTCAAT
*
56345062 ACACTTTTCACTTTCTTACAATTTAGTCAAT
1 ACACTTTTCACTTTCTTACAATCTAGTCAAT
56345093 AC
1 AC
56345095 CTCATATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.25, G:0.03, T:0.42
Consensus pattern (31 bp):
ACACTTTTCACTTTCTTACAATCTAGTCAAT
Found at i:56346642 original size:40 final size:39
Alignment explanation
Indices: 56346559--56346643 Score: 100
Period size: 40 Copynumber: 2.2 Consensus size: 39
56346549 GGGTTTTTTT
* * *
56346559 AGGGTTAAAATTGATTCGAGAATCAATTAAGAAGGGTTT
1 AGGGTTAAAATCGATTCAAGAATCAATTAAGAAGGGTTA
* *
56346598 AGGGTTAGAAATCGATTCAATAATCAATTAA-TAGGGTATA
1 AGGGTTA-AAATCGATTCAAGAATCAATTAAGAAGGGT-TA
56346638 AGGGTT
1 AGGGTT
56346644 TAGGCTATGA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 12 0.31
40 27 0.69
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.31
Consensus pattern (39 bp):
AGGGTTAAAATCGATTCAAGAATCAATTAAGAAGGGTTA
Found at i:56346870 original size:12 final size:12
Alignment explanation
Indices: 56346855--56346915 Score: 59
Period size: 12 Copynumber: 5.1 Consensus size: 12
56346845 GGTTATTTCA
*
56346855 ATTTCAATTTTG
1 ATTTCGATTTTG
* *
56346867 ATTTCGATTCTA
1 ATTTCGATTTTG
* * *
56346879 ATTTTGACTTCG
1 ATTTCGATTTTG
56346891 ATTTCGATTTTG
1 ATTTCGATTTTG
*
56346903 ATTTCAATTTTG
1 ATTTCGATTTTG
56346915 A
1 A
56346916 AACACTCACT
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.23, C:0.11, G:0.11, T:0.54
Consensus pattern (12 bp):
ATTTCGATTTTG
Found at i:56346881 original size:18 final size:18
Alignment explanation
Indices: 56346849--56346912 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
56346839 ATTTAGGGTT
*
56346849 ATTTCAATTTCAATTTTG
1 ATTTCGATTTCAATTTTG
56346867 ATTTCGA-TTCTAATTTTG
1 ATTTCGATTTC-AATTTTG
* *
56346885 ACTTCGATTTCGATTTTG
1 ATTTCGATTTCAATTTTG
*
56346903 ATTTCAATTT
1 ATTTCGATTT
56346913 TGAAACACTC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
17 3 0.08
18 33 0.85
19 3 0.08
ACGTcount: A:0.23, C:0.12, G:0.09, T:0.55
Consensus pattern (18 bp):
ATTTCGATTTCAATTTTG
Found at i:56346948 original size:6 final size:6
Alignment explanation
Indices: 56346931--56346998 Score: 55
Period size: 6 Copynumber: 11.3 Consensus size: 6
56346921 TCACTCATTC
* ** * * * * *
56346931 TGATTT TAATTT TGATTT CAATTT CGATCT CGATTT AGATTT AGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
*
56346979 TGATTT TGATTT GGATTT TG
1 TGATTT TGATTT TGATTT TG
56346999 GTTTGGTTAT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.22, C:0.06, G:0.16, T:0.56
Consensus pattern (6 bp):
TGATTT
Found at i:56346998 original size:12 final size:12
Alignment explanation
Indices: 56346962--56347004 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
56346952 TTTCGATCTC
* *
56346962 GATTTAGATTTA
1 GATTTGGATTTT
*
56346974 GATTTTGATTTT
1 GATTTGGATTTT
56346986 GATTTGGATTTT
1 GATTTGGATTTT
*
56346998 GGTTTGG
1 GATTTGG
56347005 TTATTAAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.56
Consensus pattern (12 bp):
GATTTGGATTTT
Found at i:56347325 original size:61 final size:61
Alignment explanation
Indices: 56347209--56347325 Score: 180
Period size: 61 Copynumber: 1.9 Consensus size: 61
56347199 TTGTCTGTTA
* * **
56347209 TTGTCTGCCATGTGCAAGACAAAAATGGTTGTGTTTGTATTAAATTATTTTGTATTGGTTG
1 TTGTCTACCATGTGCAAGACAAAAATGGTTGGGTTTGTATTAAATTATTGGGTATTGGTTG
* *
56347270 TTGTCTACCATGTGCATGACAGAAATGGTTGGGTTTGTATTAAATTATTGGGTATT
1 TTGTCTACCATGTGCAAGACAAAAATGGTTGGGTTTGTATTAAATTATTGGGTATT
56347326 TTGTAGTAGT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.43
Consensus pattern (61 bp):
TTGTCTACCATGTGCAAGACAAAAATGGTTGGGTTTGTATTAAATTATTGGGTATTGGTTG
Found at i:56347472 original size:15 final size:15
Alignment explanation
Indices: 56347452--56347497 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
56347442 AAGAAATGTT
56347452 TGGTAGTGATGTGTC
1 TGGTAGTGATGTGTC
**
56347467 TGGTAGTGATGCATC
1 TGGTAGTGATGTGTC
**
56347482 TGAAAGTGATGTGTC
1 TGGTAGTGATGTGTC
56347497 T
1 T
56347498 AATAGGATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.20, C:0.09, G:0.35, T:0.37
Consensus pattern (15 bp):
TGGTAGTGATGTGTC
Found at i:56349258 original size:28 final size:28
Alignment explanation
Indices: 56349207--56349269 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
56349197 GTGTGTTGAC
* *
56349207 TTTTTTT-TAATATGCATGCGGTGAGTA
1 TTTTTTTATAATATGCATGCAGTGACTA
* *
56349234 TTTTTTTATAATATGCATGTAGTGACTG
1 TTTTTTTATAATATGCATGCAGTGACTA
56349262 TTTTTTTA
1 TTTTTTTA
56349270 GGTGTATGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 7 0.23
28 24 0.77
ACGTcount: A:0.22, C:0.06, G:0.17, T:0.54
Consensus pattern (28 bp):
TTTTTTTATAATATGCATGCAGTGACTA
Found at i:56354015 original size:42 final size:41
Alignment explanation
Indices: 56353956--56354041 Score: 145
Period size: 42 Copynumber: 2.1 Consensus size: 41
56353946 TTTAGGCAGT
*
56353956 GTTTCTCTGTTATCAATCGCTGCTGATAAATGTCATCATGGG
1 GTTTCTCTGTTATCAATCACTGCTGAT-AATGTCATCATGGG
*
56353998 GTTTCTCTGTTATCAATCACTGCTGATAATGTCATCATGTG
1 GTTTCTCTGTTATCAATCACTGCTGATAATGTCATCATGGG
56354039 GTT
1 GTT
56354042 ACTTCTGGTA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
41 16 0.38
42 26 0.62
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.41
Consensus pattern (41 bp):
GTTTCTCTGTTATCAATCACTGCTGATAATGTCATCATGGG
Found at i:56357127 original size:108 final size:107
Alignment explanation
Indices: 56356998--56357238 Score: 269
Period size: 108 Copynumber: 2.3 Consensus size: 107
56356988 TGTTAGAAAC
* * * * *
56356998 AAATTAAAAAAATTAATATTATTTTAAAAATGAGTATAAC-AATTAACTA-GATAAATAGTTGTT
1 AAATTATAAAAA-TAAAATTATTTAAAAAATAAGTAT-ACGAATTAAC-AGGACAAATAGTTGTT
***
56357061 TAAGTTCATTTGAGA-TTGAACACTTGTTTGTCTAGATTCATTTTG
63 TAAGTTCATTTGA-ATTTGAACACCCATTTGTCTAGATTCATTTTG
* *
56357106 AAATTATAAAAATCAAAATTATTTAAAAAATAAGTATACGGATTAACAGGACAAATGGTTGTTTA
1 AAATTATAAAAAT-AAAATTATTTAAAAAATAAGTATACGAATTAACAGGACAAATAGTTGTTTA
* *
56357171 AGTTCATTTGAATTTGGACACCCATTTGTCTATATTCATTTTG
65 AGTTCATTTGAATTTGAACACCCATTTGTCTAGATTCATTTTG
*
56357214 GAATT-TAAATAA-AAAATTA-TTAAAA
1 AAATTATAAA-AATAAAATTATTTAAAA
56357239 TTATATGGTT
Statistics
Matches: 115, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
105 6 0.05
106 7 0.06
107 9 0.08
108 93 0.81
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (107 bp):
AAATTATAAAAATAAAATTATTTAAAAAATAAGTATACGAATTAACAGGACAAATAGTTGTTTAA
GTTCATTTGAATTTGAACACCCATTTGTCTAGATTCATTTTG
Found at i:56374025 original size:27 final size:25
Alignment explanation
Indices: 56373924--56374047 Score: 96
Period size: 24 Copynumber: 5.0 Consensus size: 25
56373914 GTGAGCCATG
* *
56373924 TAAT-GGGAAGCTCATAAGAG-CTG
1 TAATCGGGAAGCTCAGAAGAGCCTT
* * **
56373947 TAATCGGGAAGTTCA-AGCGAGCCAA
1 TAATCGGGAAGCTCAGA-AGAGCCTT
* * *
56373972 T-ATCTGGAAGCTCCGAAGAGCCAT
1 TAATCGGGAAGCTCAGAAGAGCCTT
56373996 TAATTC-GGAAGCTCATGAAAGAGCCTT
1 TAA-TCGGGAAGCTCA-G-AAGAGCCTT
56374023 TAATCGGGAAGCTCAGAAGAGCCTT
1 TAATCGGGAAGCTCAGAAGAGCCTT
56374048 ATATCAGGAC
Statistics
Matches: 81, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
23 5 0.06
24 29 0.36
25 21 0.26
26 6 0.07
27 20 0.25
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (25 bp):
TAATCGGGAAGCTCAGAAGAGCCTT
Found at i:56374061 original size:25 final size:24
Alignment explanation
Indices: 56373971--56374061 Score: 78
Period size: 25 Copynumber: 3.5 Consensus size: 24
56373961 AAGCGAGCCA
*
56373971 ATATCTGGAAGCTCCGAAGAGCCATT
1 ATATC-GGAAGCTCAGAAGAGCC-TT
56373997 A-ATTCGGAAGCTCATGAAAGAGCCTT
1 ATA-TCGGAAGCTCA-G-AAGAGCCTT
56374023 -TAATCGGGAAGCTCAGAAGAGCCTT
1 AT-ATC-GGAAGCTCAGAAGAGCCTT
*
56374048 ATATCAGGACGCTC
1 ATATC-GGAAGCTC
56374062 CAAAGAGTTG
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
25 28 0.51
26 10 0.18
27 17 0.31
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (24 bp):
ATATCGGAAGCTCAGAAGAGCCTT
Found at i:56374067 original size:25 final size:24
Alignment explanation
Indices: 56373929--56374068 Score: 63
Period size: 25 Copynumber: 5.6 Consensus size: 24
56373919 CCATGTAATG
* *
56373929 GGAAGCTCATAAGAG-CTGTAATCG
1 GGAAGCTCA-AAGAGCCTTTAATCA
* * ** *
56373953 GGAAGTTCAAGCGAGCCAAT-ATCT
1 GGAAGCTCAA-AGAGCCTTTAATCA
* *
56373977 GGAAGCTCCGAAGAGCCATTAATTC-
1 GGAAGCT-CAAAGAGCCTTTAA-TCA
*
56374002 GGAAGCTCATGAAAGAGCCTTTAATCG
1 GGAAGCTC---AAAGAGCCTTTAATCA
56374029 GGAAGCTCAGAAGAGCC-TTATATCA
1 GGAAGCTCA-AAGAGCCTTTA-ATCA
*
56374054 GGACGCTCCAAAGAG
1 GGAAGCT-CAAAGAG
56374069 TTGTGGCGTG
Statistics
Matches: 91, Mismatches: 13, Indels: 23
0.72 0.10 0.18
Matches are distributed among these distances:
23 1 0.01
24 32 0.35
25 33 0.36
26 6 0.07
27 19 0.21
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (24 bp):
GGAAGCTCAAAGAGCCTTTAATCA
Found at i:56374216 original size:24 final size:25
Alignment explanation
Indices: 56374154--56374216 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 25
56374144 CAAGAACCAT
*
56374154 ATAACGGGAAGCTCATGAGAGCCAA
1 ATAATGGGAAGCTCATGAGAGCCAA
* * * *
56374179 ATATTAGGATGCTCATGAGAG-CTA
1 ATAATGGGAAGCTCATGAGAGCCAA
*
56374203 ATAATGGGACGCTC
1 ATAATGGGAAGCTC
56374217 TTTTGAGCTG
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
24 13 0.43
25 17 0.57
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (25 bp):
ATAATGGGAAGCTCATGAGAGCCAA
Found at i:56376369 original size:26 final size:26
Alignment explanation
Indices: 56376340--56376401 Score: 88
Period size: 26 Copynumber: 2.4 Consensus size: 26
56376330 TACCCCCAGC
* *
56376340 AAAATTTTGATGATTTTACACTTGAT
1 AAAATTTTGATAATTTTACACCTGAT
* *
56376366 AAAATTTTGATAATTTTACCCCTGGT
1 AAAATTTTGATAATTTTACACCTGAT
56376392 AAAATTTTGA
1 AAAATTTTGA
56376402 GAAAATATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (26 bp):
AAAATTTTGATAATTTTACACCTGAT
Found at i:56378296 original size:12 final size:11
Alignment explanation
Indices: 56378279--56378335 Score: 57
Period size: 10 Copynumber: 5.2 Consensus size: 11
56378269 AACAAATCCT
56378279 CTCTCATATTTC
1 CTCTCA-ATTTC
56378291 CTCTCAA-TTC
1 CTCTCAATTTC
56378301 CTCTCAATTTC
1 CTCTCAATTTC
*
56378312 CT-TCCAAAATT-
1 CTCT-C-AATTTC
56378323 CTCTCAATTTC
1 CTCTCAATTTC
56378334 CT
1 CT
56378336 TCCAAAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 15 0.39
11 12 0.32
12 11 0.29
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:56378326 original size:22 final size:22
Alignment explanation
Indices: 56378296--56378348 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
56378286 ATTTCCTCTC
56378296 AATTCCTCTCAATTTCCTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
56378319 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
56378341 AATTCTCT
1 AATTCTCT
56378349 TAAATCCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:56379544 original size:7 final size:7
Alignment explanation
Indices: 56379534--56379558 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
56379524 ATTCGATTGA
56379534 TATTTAG
1 TATTTAG
56379541 TATTTAG
1 TATTTAG
56379548 TATTTAG
1 TATTTAG
56379555 TATT
1 TATT
56379559 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:56380715 original size:37 final size:37
Alignment explanation
Indices: 56380654--56380799 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
56380644 TACGTATGAT
* *
56380654 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
56380689 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
56380726 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
56380763 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
56380800 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:56380816 original size:46 final size:46
Alignment explanation
Indices: 56380763--56381024 Score: 373
Period size: 46 Copynumber: 5.6 Consensus size: 46
56380753 TAAGTGTAGC
* **
56380763 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
56380809 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
56380855 CACTTATCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
56380900 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
56380946 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
56380998 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
56381025 AGTACTCAAA
Statistics
Matches: 197, Mismatches: 12, Indels: 14
0.88 0.05 0.06
Matches are distributed among these distances:
45 43 0.22
46 112 0.57
48 1 0.01
50 1 0.01
52 40 0.20
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:56380976 original size:52 final size:52
Alignment explanation
Indices: 56380897--56381010 Score: 158
Period size: 52 Copynumber: 2.2 Consensus size: 52
56380887 TAGCCGAAGC
* **
56380897 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTT-TCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
* *
56380950 TATCACTTTCCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTT-CACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
56381002 TATCACTTT
1 TATCACTTT
56381011 GTCACTTGAT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
52 44 0.80
53 11 0.20
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (52 bp):
TATCACTTTCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTACCACT
Found at i:56380981 original size:98 final size:91
Alignment explanation
Indices: 56380763--56381024 Score: 398
Period size: 91 Copynumber: 2.8 Consensus size: 91
56380753 TAAGTGTAGC
* *
56380763 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
56380828 TGATCAGATAAGTATAGCCGAAGCTAT
65 TGATCAGATAAGTATAGCCGAAGCTAT
**
56380855 CACTTATCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTATCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
56380920 GATCAGATAAGTATAGCCGAAGCTAT
66 GATCAGATAAGTATAGCCGAAGCTAT
* *
56380946 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1 CAC-T-T-A---T-CACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTT
56381011 GTCACTTGATCAGA
59 GTCACTTGATCAGA
56381025 AGTACTCAAA
Statistics
Matches: 155, Mismatches: 8, Indels: 8
0.91 0.05 0.05
Matches are distributed among these distances:
91 79 0.51
92 11 0.07
93 1 0.01
94 1 0.01
97 1 0.01
98 62 0.40
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (91 bp):
CACTTATCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTAT
Found at i:56383203 original size:18 final size:18
Alignment explanation
Indices: 56383177--56383211 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56383167 AGGTGCGTTT
*
56383177 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
56383195 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
56383212 TCCTTTTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:56383684 original size:43 final size:42
Alignment explanation
Indices: 56383626--56383709 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 42
56383616 TTGTACAAAT
*
56383626 ATTTTGAATATTTTGATATTATTTTATGT-ACAAAATAGAAA
1 ATTTTGAATATTTTGATATTATTTGATGTAACAAAATAGAAA
*
56383667 ATTTTGAAGTTATTTTGATATTATTTGATGTAATAAAATAGAA
1 ATTTTGAA--TATTTTGATATTATTTGATGTAACAAAATAGAA
56383710 GTTTATTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 8 0.21
43 20 0.53
44 10 0.26
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.46
Consensus pattern (42 bp):
ATTTTGAATATTTTGATATTATTTGATGTAACAAAATAGAAA
Found at i:56383719 original size:35 final size:35
Alignment explanation
Indices: 56383672--56383786 Score: 87
Period size: 35 Copynumber: 3.3 Consensus size: 35
56383662 AGAAAATTTT
56383672 GAAGTTATTTTGATATTATTTGATGTAATAAAATA
1 GAAGTTATTTTGATATTATTTGATGTAATAAAATA
* * * ** * *
56383707 GAAGTT-TATTTGAT-GTA-ATAAAATAA-AAAGTTTTC
1 GAAGTTAT-TTTGATATTATTTGATGTAATAAA---ATA
56383742 G-AGTTATTTTGATATTATTTGATGTAATAAAATA
1 GAAGTTATTTTGATATTATTTGATGTAATAAAATA
56383776 GAAGTTTATTT
1 GAAG-TTATTT
56383787 GATGTAATAA
Statistics
Matches: 56, Mismatches: 14, Indels: 19
0.63 0.16 0.21
Matches are distributed among these distances:
32 3 0.05
33 5 0.09
34 15 0.27
35 19 0.34
36 11 0.20
37 3 0.05
ACGTcount: A:0.39, C:0.01, G:0.15, T:0.45
Consensus pattern (35 bp):
GAAGTTATTTTGATATTATTTGATGTAATAAAATA
Found at i:56383721 original size:25 final size:25
Alignment explanation
Indices: 56383687--56383798 Score: 105
Period size: 25 Copynumber: 4.7 Consensus size: 25
56383677 TATTTTGATA
56383687 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
56383712 TTATTTGATGTAATAAAATAAAAAG-
1 TTATTTGATGTAATAAAAT-AGAAGT
* ** *
56383737 TT-TTCGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
56383755 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
56383781 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
56383799 ACCCTAACCT
Statistics
Matches: 67, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
18 1 0.01
19 2 0.03
20 6 0.09
21 3 0.04
23 3 0.04
24 7 0.10
25 40 0.60
26 5 0.07
ACGTcount: A:0.42, C:0.01, G:0.14, T:0.43
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:56383747 original size:69 final size:69
Alignment explanation
Indices: 56383644--56383798 Score: 253
Period size: 69 Copynumber: 2.3 Consensus size: 69
56383634 TATTTTGATA
* *
56383644 TTATTTTATGT-ACAAAATAGAAAATTTTGAAGTTATTTTGATATTATTTGATGTAATAAAATAG
1 TTATTTGATGTAATAAAATAGAAAATTTTGAAGTTATTTTGATATTATTTGATGTAATAAAATAG
56383708 AAGT
66 AAGT
56383712 TTATTTGATGTAATAAAATA-AAAAGTTTTCG-AGTTATTTTGATATTATTTGATGTAATAAAAT
1 TTATTTGATGTAATAAAATAGAAAA-TTTT-GAAGTTATTTTGATATTATTTGATGTAATAAAAT
56383775 AGAAGT
64 AGAAGT
56383781 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
56383799 ACCCTAACCT
Statistics
Matches: 82, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
68 14 0.17
69 67 0.82
70 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.44
Consensus pattern (69 bp):
TTATTTGATGTAATAAAATAGAAAATTTTGAAGTTATTTTGATATTATTTGATGTAATAAAATAG
AAGT
Found at i:56383847 original size:29 final size:29
Alignment explanation
Indices: 56383826--56384346 Score: 388
Period size: 29 Copynumber: 19.0 Consensus size: 29
56383816 CCCTAAATCG
56383826 TAACCTAAATTAATT-AAAACCCTAACCC
1 TAACCTAAATTAATTAAAAACCCTAACCC
* *
56383854 TAACTTAATTTAATTAAAAACCCTAACCC
1 TAACCTAAATTAATTAAAAACCCTAACCC
*
56383883 TAACCTAAATTAATTACAAACCCTAACCC
1 TAACCTAAATTAATTAAAAACCCTAACCC
*
56383912 TAACCTAATTTAATTAAAAACCCTAAACCC
1 TAACCTAAATTAATTAAAAACCCT-AACCC
* *
56383942 T----T--A--ACTTAAAAACCCTAACCT
1 TAACCTAAATTAATTAAAAACCCTAACCC
*
56383963 TAACCTAATTTAATTAAAAACCCTAA-CC
1 TAACCTAAATTAATTAAAAACCCTAACCC
* *
56383991 TAA-TTTAATTAA--AAAAACCCTAATTAAAAACCC
1 TAACCTAAATTAATTAAAAACCC----T---AACCC
* *
56384024 TAACCTAATTTAATTAAAAACCCTAA-CG
1 TAACCTAAATTAATTAAAAACCCTAACCC
*
56384052 TAA--T---TTAATT-AAAACCCTAACTC
1 TAACCTAAATTAATTAAAAACCCTAACCC
*
56384075 TAACCTAATTTAATTAAAAACCCTAAACCC
1 TAACCTAAATTAATTAAAAACCCT-AACCC
* *
56384105 T----T--A--ACTTAAAAACCCTAACCT
1 TAACCTAAATTAATTAAAAACCCTAACCC
* *
56384126 TAAACTAATTTAATTAAAAACCCTAACCC
1 TAACCTAAATTAATTAAAAACCCTAACCC
*
56384155 TAACCTAATTTAATTAAAAACCCTAACCC
1 TAACCTAAATTAATTAAAAACCCTAACCC
*
56384184 TAACCTAATTTAATTAAAAA--CT----C
1 TAACCTAAATTAATTAAAAACCCTAACCC
* * *
56384207 TAAACT--CTTAACTTAAAAACCCTAACCT
1 TAACCTAAATTAA-TTAAAAACCCTAACCC
*
56384235 TAACCTAATTTAATTAAAAACCCTAA-CC
1 TAACCTAAATTAATTAAAAACCCTAACCC
* *
56384263 TAA--T---TTAATTAAAAACTCAAACCC
1 TAACCTAAATTAATTAAAAACCCTAACCC
* * *
56384287 TAACTTAATTTAATTAAAAACCCTAACTC
1 TAACCTAAATTAATTAAAAACCCTAACCC
*
56384316 TAACCTAATTTAATTAAAAACCCTAAACCC
1 TAACCTAAATTAATTAAAAACCCT-AACCC
56384346 T
1 T
56384347 TAACTCAAAA
Statistics
Matches: 397, Mismatches: 43, Indels: 104
0.73 0.08 0.19
Matches are distributed among these distances:
21 14 0.04
22 41 0.10
23 30 0.08
24 7 0.02
25 11 0.03
26 5 0.01
27 8 0.02
28 36 0.09
29 203 0.51
30 20 0.05
32 3 0.01
33 5 0.01
34 6 0.02
36 8 0.02
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (29 bp):
TAACCTAAATTAATTAAAAACCCTAACCC
Found at i:56383951 original size:80 final size:75
Alignment explanation
Indices: 56383863--56384013 Score: 212
Period size: 80 Copynumber: 1.9 Consensus size: 75
56383853 CTAACTTAAT
*
56383863 TTAATTAAAAACCCTAACCCTAACCTAAATTAATTACAAACCCTAACCCTAACCTAATTTAATTA
1 TTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAA-CCTAACCTAA-TTAA--A
56383928 AAAACCCTAAACCC
62 AAAACCCTAAACCC
* * **
56383942 TTAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAAA
1 TTAA-TTAAAAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCTAACCTAATTAAAAAA
56384007 ACCCTAA
65 ACCCTAA
56384014 TTAAAAACCC
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
76 11 0.17
78 4 0.06
79 12 0.18
80 39 0.59
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (75 bp):
TTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCTAACCTAATTAAAAAAA
CCCTAAACCC
Found at i:56383953 original size:22 final size:20
Alignment explanation
Indices: 56383921--56383966 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
56383911 CTAACCTAAT
56383921 TTAA-TTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCT-AA-CC
56383942 TTAACTTAAAAACCCTAACC
1 TTAACTTAAAAACCCTAACC
56383962 TTAAC
1 TTAAC
56383967 CTAATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 6 0.25
22 11 0.46
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAACTTAAAAACCCTAACC
Found at i:56383961 original size:51 final size:49
Alignment explanation
Indices: 56383835--56384313 Score: 431
Period size: 51 Copynumber: 9.0 Consensus size: 49
56383825 GTAACCTAAA
*
56383835 TTAATT-AAAACCCTAACCCTAACTTAATTTAATTAAAAACCCTAACCC
1 TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCC
56383883 TAACCTAAATTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
1 T----T-AATT-A--A-AAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCC
* *
56383942 TTAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCTAAT
1 TTAA-TTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACC---C
**
56383995 TTAATTAAAAAAACCCTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACGTAAT
1 TTAATT--AAAAACCC----T---AACCCTAACCTAATTTAATTAAAAACCCTAAC---CC
*
56384056 TTAATT-AAAACCCTAACTCTAACCTAATTTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCC
* *
56384105 TTAACTTAAAAACCCTAACCTTAAACTAATTTAATTAAAAACCCTAACCCTAACC
1 TTAA-TTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA--C---CC
* *
56384160 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACTCTAAACTC
1 ----TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCC
* *
56384214 TTAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCTAAT
1 TTAA-TTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACC---C
* * *
56384267 TTAATTAAAAACTCAAACCCTAACTTAATTTAATTAAAAACCCTAAC
1 TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAC
56384314 TCTAACCTAA
Statistics
Matches: 364, Mismatches: 23, Indels: 84
0.77 0.05 0.18
Matches are distributed among these distances:
48 1 0.00
49 4 0.01
50 15 0.04
51 135 0.37
52 47 0.13
53 12 0.03
54 13 0.04
55 5 0.01
57 2 0.01
58 80 0.22
59 12 0.03
61 38 0.10
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (49 bp):
TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCC
Found at i:56383982 original size:109 final size:104
Alignment explanation
Indices: 56383835--56384346 Score: 447
Period size: 109 Copynumber: 4.7 Consensus size: 104
56383825 GTAACCTAAA
*
56383835 TTAATT-AAAACCCTAACCCTAACTTAATTTAATTAAAAACCCTAACCCTAACCTAAATTAATTA
1 TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAATTAA--A
56383899 CAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
64 -AAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCC
* * *
56383942 TTAACTTAAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAA-CCTAA-TTTAATTAAAA
1 TTAA-TTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAATT-AAA
**
56384005 AAACCCTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACGTAAT
64 AAACCC----T---AACCCTAACCTAATTTAATTAAAAACCCTAAC---CC
* *
56384056 TTAATT-AAAACCCTAACTCTAACCTAATTTAATTAAAAACCCTAAACCCT----TAACTT-AAA
1 TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAAATTAAAA
* *
56384115 AACCCTAACCTTAAACTAATTTAATTAAAAACCCTAACCCTAACC
65 AACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA--C---CC
* * * *
56384160 TAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACTCTAA-ACT--CTTAACTT-
1 ----TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAATTA
* *
56384221 AAAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAACCTAAT
62 AAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACC---C
* * * * *
56384267 TTAATTAAAAACTCAAACCCTAACTTAATTTAATTAAAAACCCTAACTCTAACCTAATTTAATTA
1 TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAATT-A--A
56384332 AAAACCCTAAACCCT
63 AAAACCCT-AACCCT
56384347 TAACTCAAAA
Statistics
Matches: 341, Mismatches: 29, Indels: 66
0.78 0.07 0.15
Matches are distributed among these distances:
102 29 0.09
103 42 0.12
104 5 0.01
105 7 0.02
106 7 0.02
107 12 0.04
108 17 0.05
109 126 0.37
110 9 0.03
111 12 0.04
112 64 0.19
113 4 0.01
114 7 0.02
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (104 bp):
TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAATTAAAAA
ACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCC
Found at i:56384124 original size:21 final size:20
Alignment explanation
Indices: 56384084--56384128 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
56384074 CTAACCTAAT
56384084 TTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCCTAAA-CC
56384105 TTAACTTAAAAACCCT-AACC
1 TTAA-TTAAAAACCCTAAACC
56384125 TTAA
1 TTAA
56384129 ACTAATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.26
21 6 0.26
22 11 0.48
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (20 bp):
TTAATTAAAAACCCTAAACC
Found at i:56384359 original size:22 final size:20
Alignment explanation
Indices: 56384331--56384370 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
56384321 TAATTTAATT
56384331 AAAAACCCTAAACCCTTAACTC
1 AAAAACCCT-AA-CCTTAACTC
56384353 AAAAACCCTAACCTTAAC
1 AAAAACCCTAACCTTAAC
56384371 GTAATGTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 9 0.50
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.17
Consensus pattern (20 bp):
AAAAACCCTAACCTTAACTC
Found at i:56384445 original size:37 final size:36
Alignment explanation
Indices: 56384404--56384562 Score: 88
Period size: 37 Copynumber: 4.2 Consensus size: 36
56384394 TTTTGACTGG
56384404 TACTAACAAATAATAATTTTACATAATTTGATAATTT
1 TACTAACAAATAATAATTTTA-ATAATTTGATAATTT
* * * * * *
56384441 TACTAACCATTAATACAATTTT-TTGACTTAATAATTT
1 TACTAACAAATAAT--AATTTTAATAATTTGATAATTT
* ** * * * * *
56384478 TACATTCACATAATGTTAGATTTGAAAAATGTT-TTGATTGG
1 TAC--TAACA-AATAATA-ATTTTAATAAT-TTGATAATT-T
56384519 TACTAACAAATAATAATTTTACATAATTTGATAATTT
1 TACTAACAAATAATAATTTTA-ATAATTTGATAATTT
56384556 TACTAAC
1 TACTAAC
56384563 CATTAATACA
Statistics
Matches: 84, Mismatches: 27, Indels: 22
0.63 0.20 0.17
Matches are distributed among these distances:
37 40 0.48
38 14 0.17
39 17 0.20
40 8 0.10
41 5 0.06
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (36 bp):
TACTAACAAATAATAATTTTAATAATTTGATAATTT
Found at i:56384514 original size:115 final size:115
Alignment explanation
Indices: 56384372--56384702 Score: 610
Period size: 115 Copynumber: 2.9 Consensus size: 115
56384362 AACCTTAACG
56384372 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
56384437 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAA-TTTTTGACTTAATAATTTTACATTCACA
*
56384488 TAATGTTAGATTT-GAAAAATGTTTTGATTGGTACTAACAAATAATAATTTTACATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
56384552 ATTTTACTAACCATTAATACAATTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTGACTTAATAATTTTACATTCACA
* * *
56384602 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
56384667 ATTTTACTAACCATTAATACAATTTTTGACTTAATA
66 ATTTTACTAACCATTAATACAATTTTTGACTTAATA
56384703 CAATTTATCA
Statistics
Matches: 209, Mismatches: 5, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
114 41 0.20
115 155 0.74
116 13 0.06
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.43
Consensus pattern (115 bp):
TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
ATTTTACTAACCATTAATACAATTTTTGACTTAATAATTTTACATTCACA
Found at i:56384717 original size:17 final size:17
Alignment explanation
Indices: 56384679--56384719 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
56384669 TTTACTAACC
* *
56384679 ATTAATACAATTTTTGA
1 ATTAATACAATTTATCA
*
56384696 CTTAATACAATTTATCA
1 ATTAATACAATTTATCA
56384713 ATTAATA
1 ATTAATA
56384720 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (17 bp):
ATTAATACAATTTATCA
Found at i:56401897 original size:32 final size:31
Alignment explanation
Indices: 56401861--56401923 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
56401851 CCTAGTGATC
56401861 TAAATAAAAAAGTTTTGAATAGTTCAATGACT
1 TAAAT-AAAAAGTTTTGAATAGTTCAATGACT
* * * *
56401893 TAAATAGAAATTTTTGGATAGTTTAATGACT
1 TAAATAAAAAGTTTTGAATAGTTCAATGACT
56401924 ATTAAAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 22 0.81
32 5 0.19
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (31 bp):
TAAATAAAAAGTTTTGAATAGTTCAATGACT
Found at i:56408580 original size:20 final size:20
Alignment explanation
Indices: 56408555--56408592 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
56408545 ATGCTAACAA
56408555 AGGCACCAAAGTGCAATCAG
1 AGGCACCAAAGTGCAATCAG
*
56408575 AGGCACCGAAGTGCAATC
1 AGGCACCAAAGTGCAATC
56408593 CCGTACAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.26, G:0.26, T:0.11
Consensus pattern (20 bp):
AGGCACCAAAGTGCAATCAG
Found at i:56409425 original size:21 final size:19
Alignment explanation
Indices: 56409379--56409433 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
56409369 TGTTAAAAAT
56409379 AATTAAAAT--AAGTAATAA
1 AATTAAAATAAAAG-AATAA
56409397 AATTAAAATAAAAGAATAA
1 AATTAAAATAAAAGAATAA
*
56409416 AAGGTTAAAATATAAGAA
1 AA--TTAAAATAAAAGAA
56409434 AACATAATGG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 9 0.28
19 7 0.22
20 3 0.09
21 13 0.41
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (19 bp):
AATTAAAATAAAAGAATAA
Found at i:56410424 original size:39 final size:40
Alignment explanation
Indices: 56410355--56410475 Score: 154
Period size: 39 Copynumber: 3.0 Consensus size: 40
56410345 GCGTTATACT
* * *
56410355 TTCTGTTTGACATGATTCGAGTGGATCAGCTCTTATGAGC
1 TTCTGTTTGGCATGTTTCGGGTGGATCAGCTCTTATGAGC
*
56410395 TTCTG-TTGGCATGTTTCGGGTGGACCAGCTCTTATGAGC
1 TTCTGTTTGGCATGTTTCGGGTGGATCAGCTCTTATGAGC
** * * *
56410434 TTCTGTTTGGTGTATTTCGGTTGGATCAACTCTTATGAGC
1 TTCTGTTTGGCATGTTTCGGGTGGATCAGCTCTTATGAGC
56410474 TT
1 TT
56410476 TTGTCTGGTG
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
39 35 0.50
40 35 0.50
ACGTcount: A:0.16, C:0.17, G:0.26, T:0.40
Consensus pattern (40 bp):
TTCTGTTTGGCATGTTTCGGGTGGATCAGCTCTTATGAGC
Found at i:56410467 original size:40 final size:40
Alignment explanation
Indices: 56410370--56410486 Score: 146
Period size: 40 Copynumber: 3.0 Consensus size: 40
56410360 TTTGACATGA
* ** *
56410370 TTCGAGTGGATCAGCTCTTATGAGCTTCTG-TTGGCATGT
1 TTCGGGTGGATCAGCTCTTATGAGCTTCTGTTTGGTGTAT
*
56410409 TTCGGGTGGACCAGCTCTTATGAGCTTCTGTTTGGTGTAT
1 TTCGGGTGGATCAGCTCTTATGAGCTTCTGTTTGGTGTAT
* * * *
56410449 TTCGGTTGGATCAACTCTTATGAGCTTTTGTCTGGTGT
1 TTCGGGTGGATCAGCTCTTATGAGCTTCTGTTTGGTGT
56410487 GTTCGGTCTA
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 28 0.42
40 39 0.58
ACGTcount: A:0.14, C:0.17, G:0.28, T:0.41
Consensus pattern (40 bp):
TTCGGGTGGATCAGCTCTTATGAGCTTCTGTTTGGTGTAT
Found at i:56412685 original size:21 final size:22
Alignment explanation
Indices: 56412661--56412706 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
56412651 AAATCTTGAT
*
56412661 CTATAATAATT-AAATTCA-ATC
1 CTATAA-AATTCAAATACACATC
56412682 CTATAAAATTCAAATACACATC
1 CTATAAAATTCAAATACACATC
56412704 CTA
1 CTA
56412707 ACTTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 4 0.18
21 12 0.55
22 6 0.27
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.33
Consensus pattern (22 bp):
CTATAAAATTCAAATACACATC
Found at i:56413487 original size:23 final size:22
Alignment explanation
Indices: 56413442--56413488 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
56413432 CAAAAATATA
*
56413442 TTAAATATATATATTTTTATTT
1 TTAAATATATATAGTTTTATTT
*
56413464 TTAAA-ATATACTAGTTTTAGTT
1 TTAAATATATA-TAGTTTTATTT
56413486 TTA
1 TTA
56413489 TTTTAAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (22 bp):
TTAAATATATATAGTTTTATTT
Found at i:56413551 original size:16 final size:16
Alignment explanation
Indices: 56413530--56413596 Score: 54
Period size: 16 Copynumber: 4.5 Consensus size: 16
56413520 TTGTTATAAG
56413530 AATTAATACAATTAAC
1 AATTAATACAATTAAC
* * *
56413546 AATTAATA-ATTTGAT
1 AATTAATACAATTAAC
*
56413561 AATT-TTAC---TAAC
1 AATTAATACAATTAAC
*
56413573 AATTAATACAATTCAC
1 AATTAATACAATTAAC
56413589 AATTAATA
1 AATTAATA
56413597 ATTTTACTAA
Statistics
Matches: 38, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
12 6 0.16
13 3 0.08
14 2 0.05
15 8 0.21
16 19 0.50
ACGTcount: A:0.51, C:0.10, G:0.01, T:0.37
Consensus pattern (16 bp):
AATTAATACAATTAAC
Found at i:56413609 original size:19 final size:19
Alignment explanation
Indices: 56413559--56413609 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 19
56413549 TAATAATTTG
56413559 ATAATTTTACTAACAATTA
1 ATAATTTTACTAACAATTA
*
56413578 ATACA-ATT-C--ACAATTA
1 ATA-ATTTTACTAACAATTA
56413594 ATAATTTTACTAACAA
1 ATAATTTTACTAACAA
56413610 AATGTTAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
15 1 0.04
16 12 0.48
17 1 0.04
18 1 0.04
19 9 0.36
20 1 0.04
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAATTTTACTAACAATTA
Found at i:56413635 original size:83 final size:84
Alignment explanation
Indices: 56413537--56413703 Score: 214
Period size: 86 Copynumber: 2.0 Consensus size: 84
56413527 AAGAATTAAT
*
56413537 ACAATTAACAATTAATAATTTG-ATAATTTTACTAACAATTAAT-ACAATT-CACAATTAATAAT
1 ACAATTAACAATTAATAATTTGAATAATTTGA-TAA-AATTAATAACAATTACACAATTAATAAT
56413599 TTTACTAACAAAATGTTAGTA
64 TTTACTAACAAAATGTTAGTA
* ** * * *
56413620 ACAATTAATAATTAATAATTTGATATAATTTGATAATTTTAGTAACAATTAATACAATTGATAAT
1 ACAATTAACAATTAATAATTTGA-ATAATTTGATAAAATTAATAACAATT-ACACAATTAATAAT
56413685 TTTACTAACAAAATGTTAG
64 TTTACTAACAAAATGTTAG
56413704 ATTTTACAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
83 25 0.35
84 9 0.12
85 8 0.11
86 30 0.42
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.39
Consensus pattern (84 bp):
ACAATTAACAATTAATAATTTGAATAATTTGATAAAATTAATAACAATTACACAATTAATAATTT
TACTAACAAAATGTTAGTA
Found at i:56413767 original size:16 final size:16
Alignment explanation
Indices: 56413748--56413804 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
56413738 AATTTGATAC
56413748 AATTTTAATAACAATT
1 AATTTTAATAACAATT
* *
56413764 AATTTTGATAACATTT
1 AATTTTAATAACAATT
*
56413780 AATTTTAATAAGAATT
1 AATTTTAATAACAATT
*
56413796 AGTTTTAAT
1 AATTTTAAT
56413805 TTTAATAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:56413802 original size:22 final size:23
Alignment explanation
Indices: 56413777--56413839 Score: 92
Period size: 22 Copynumber: 2.7 Consensus size: 23
56413767 TTTGATAACA
* *
56413777 TTTAATTTTAATAAGAAT-TAGT
1 TTTAATTTTAATAAAAATATAAT
56413799 TTTAATTTTAATAAAAATATAAT
1 TTTAATTTTAATAAAAATATAAT
56413822 TTTAATTTTAATTAAAAA
1 TTTAATTTTAA-TAAAAA
56413840 ACGGGACGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 17 0.46
23 14 0.38
24 6 0.16
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
TTTAATTTTAATAAAAATATAAT
Found at i:56425610 original size:11 final size:10
Alignment explanation
Indices: 56425591--56425673 Score: 67
Period size: 11 Copynumber: 7.5 Consensus size: 10
56425581 TTTTGCAGGT
56425591 TTTTGGTGTTG
1 TTTT-GTGTTG
56425602 TTTTAGTGTTG
1 TTTT-GTGTTG
*
56425613 TTTGTGATGCTGTT
1 TTT-TG-TG-T-TG
56425627 TTTTGTGTTG
1 TTTTGTGTTG
*
56425637 TTTTGATGCTG
1 TTTTG-TGTTG
*
56425648 TTTGGTGTTG
1 TTTTGTGTTG
56425658 TTTTGATGTTG
1 TTTTG-TGTTG
56425669 TTTTG
1 TTTTG
56425674 GTGCTACTTT
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
10 14 0.24
11 33 0.56
12 5 0.08
13 3 0.05
14 4 0.07
ACGTcount: A:0.05, C:0.02, G:0.30, T:0.63
Consensus pattern (10 bp):
TTTTGTGTTG
Found at i:56425626 original size:23 final size:22
Alignment explanation
Indices: 56425591--56425672 Score: 94
Period size: 21 Copynumber: 3.7 Consensus size: 22
56425581 TTTTGCAGGT
* *
56425591 TTTTGGTGTTGTTTTAGTGTTG
1 TTTTGATGCTGTTTTAGTGTTG
*
56425613 TTTGTGATGCTGTTTTTTGTGTTG
1 TTT-TGATGCTG-TTTTAGTGTTG
*
56425637 TTTTGATGCTG-TTTGGTGTTG
1 TTTTGATGCTGTTTTAGTGTTG
*
56425658 TTTTGATGTTGTTTT
1 TTTTGATGCTGTTTT
56425673 GGTGCTACTT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
21 19 0.37
22 6 0.12
23 14 0.27
24 13 0.25
ACGTcount: A:0.05, C:0.02, G:0.29, T:0.63
Consensus pattern (22 bp):
TTTTGATGCTGTTTTAGTGTTG
Found at i:56425884 original size:41 final size:40
Alignment explanation
Indices: 56425830--56425914 Score: 107
Period size: 41 Copynumber: 2.1 Consensus size: 40
56425820 TATAACTAGT
*
56425830 TTTTATTATATTTTTAATTTGTGTATTGTTTTAAGAATTG
1 TTTTAGTATATTTTTAATTTGTGTATTGTTTTAAGAATTG
* * * * *
56425870 TTTTAGTATCATTTTTTATTTGTTTCTTGTTTTAATATTTG
1 TTTTAGTAT-ATTTTTAATTTGTGTATTGTTTTAAGAATTG
56425911 TTTT
1 TTTT
56425915 TATGTTTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.20, C:0.02, G:0.11, T:0.67
Consensus pattern (40 bp):
TTTTAGTATATTTTTAATTTGTGTATTGTTTTAAGAATTG
Found at i:56426282 original size:22 final size:22
Alignment explanation
Indices: 56426240--56426282 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
56426230 ATACTCTTCG
* *
56426240 TACTTTTAAATTTTAGTATTTT
1 TACTTTTAAATTTAAGAATTTT
56426262 TACTTTT-AATTCTAAGAATTT
1 TACTTTTAAATT-TAAGAATTT
56426283 AACCCCTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (22 bp):
TACTTTTAAATTTAAGAATTTT
Found at i:56442496 original size:2 final size:2
Alignment explanation
Indices: 56442491--56442526 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
56442481 ATGTTTATTT
56442491 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
56442527 GTTACTGCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:56446019 original size:15 final size:16
Alignment explanation
Indices: 56445999--56446042 Score: 72
Period size: 17 Copynumber: 2.8 Consensus size: 16
56445989 CAAACAAAAC
56445999 AAAACAAATAAAC-CA
1 AAAACAAATAAACACA
56446014 AAAACAAATAAACAACA
1 AAAACAAATAAAC-ACA
56446031 AAAACAAATAAA
1 AAAACAAATAAA
56446043 AGTCTAGTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 13 0.48
17 14 0.52
ACGTcount: A:0.77, C:0.16, G:0.00, T:0.07
Consensus pattern (16 bp):
AAAACAAATAAACACA
Found at i:56446302 original size:17 final size:17
Alignment explanation
Indices: 56446280--56446315 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
56446270 AAACATAAAC
56446280 AGGAACAGAAGTAGAGA
1 AGGAACAGAAGTAGAGA
56446297 AGGAACAGAAGTAGAGA
1 AGGAACAGAAGTAGAGA
56446314 AG
1 AG
56446316 CAAGAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.36, T:0.06
Consensus pattern (17 bp):
AGGAACAGAAGTAGAGA
Found at i:56455821 original size:15 final size:15
Alignment explanation
Indices: 56455801--56455829 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
56455791 CGATATTATT
56455801 AATACTATGTATACA
1 AATACTATGTATACA
56455816 AATACTATGTATAC
1 AATACTATGTATAC
56455830 GAATGACACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (15 bp):
AATACTATGTATACA
Found at i:56466077 original size:25 final size:24
Alignment explanation
Indices: 56466047--56466095 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 24
56466037 TGTTAAAATT
56466047 TAAAGAAAATTGGAAGATCTGTAAA
1 TAAAGAAAATTGGAAGATCT-TAAA
56466072 TAAAGAAAATTGGAAGATCTTAAA
1 TAAAGAAAATTGGAAGATCTTAAA
56466096 GTTGTGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.53, C:0.04, G:0.18, T:0.24
Consensus pattern (24 bp):
TAAAGAAAATTGGAAGATCTTAAA
Found at i:56483536 original size:51 final size:50
Alignment explanation
Indices: 56483454--56483896 Score: 368
Period size: 51 Copynumber: 8.7 Consensus size: 50
56483444 GATGAACACG
* *
56483454 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGAAAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAAAAAT-ATGGTCACA
* * * ** * * *
56483505 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGA-AAAATATGGTCACA
* * * * * *
56483556 TGTGCAGTACTGTGTGAAGGCTATTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAAAAAT-ATGGTCACA
* * * * * * *
56483607 TGTGTAGTACTAAGTGAAGGATACTATGTGTACCGAAAAGCTTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAAAA-ATATGGTCACA
* * * * * *
56483658 TGTGCAGTACTGTGTGAAGGCTATTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAAAAAT-ATGGTCACA
* * * * * *
56483709 TGTGTAGTACTAAGTGAAGGATACTATGTGTACCGAAAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAAAA-ATATGGTCACA
* ** * * *
56483760 TGTGCAGTACTATGTGAAGGCTACTACGTAAACCGTAAAACT-TGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCG-AAAAATATGGTCACA
* * * *
56483810 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACT-TGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCG-AAAAATATGGTCACA
* * *
56483860 TGTGCAGTACTATGTGAAGGCTACTACGCGTATCGAA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAA
56483897 TGATAAAAGT
Statistics
Matches: 311, Mismatches: 75, Indels: 14
0.78 0.19 0.04
Matches are distributed among these distances:
49 2 0.01
50 89 0.29
51 211 0.68
52 9 0.03
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAAAAATATGGTCACA
Found at i:56483626 original size:102 final size:102
Alignment explanation
Indices: 56483450--56483887 Score: 639
Period size: 102 Copynumber: 4.3 Consensus size: 102
56483440 TATCGATGAA
* * * *
56483450 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGAAAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGCAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * *
56483515 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGAT
66 TAAGTGAAGGATACTATGTGTACCGAAAAGCTTTGAT
*
56483552 CACGTGTGCAGTACTGTGTGAAGGCTATTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGCAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
56483617 TAAGTGAAGGATACTATGTGTACCGAAAAGCTTTGAT
66 TAAGTGAAGGATACTATGTGTACCGAAAAGCTTTGAT
*
56483654 CACGTGTGCAGTACTGTGTGAAGGCTATTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGCAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
56483719 TAAGTGAAGGATACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGATACTATGTGTACCGAAAAGCTTTGAT
* * * *** * *
56483756 CACGTGTGCAGTACTATGTGAAGGCTACTACGTAAACCG-TAAAACTTGATCACGTGTGTAGTAC
1 CACGTGTGCAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * * *
56483820 TATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGAT
66 TAAGTGAAGGATACTATGTGTACCG-AAAAGCTTTGAT
*
56483856 CACGTGTGCAGTACTATGTGAAGGCTACTACG
1 CACGTGTGCAGTACTGTGTGAAGGCTACTACG
56483888 CGTATCGAAT
Statistics
Matches: 312, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
100 36 0.12
101 42 0.13
102 234 0.75
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (102 bp):
CACGTGTGCAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGATACTATGTGTACCGAAAAGCTTTGAT
Found at i:56486890 original size:50 final size:50
Alignment explanation
Indices: 56486766--56487062 Score: 274
Period size: 50 Copynumber: 5.8 Consensus size: 50
56486756 GATAATAACA
* * ** * *
56486766 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGAATGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * * **
56486815 TACCAATGTCATATCCCAGATATGGTCTTACATGGGAATTCTCATATCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
* ** * *
56486865 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
* * *
56486915 TGTCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
* * *
56486965 TGCCAACGCCATGTCCCAGACATGGTCTTGCATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCAT-A--TC--GG
* * *
56487020 ATGCCAATGCCATGTCCCAGACATGGTTTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCT
56487063 TTACCCAAAT
Statistics
Matches: 203, Mismatches: 37, Indels: 9
0.82 0.15 0.04
Matches are distributed among these distances:
48 1 0.00
49 36 0.18
50 124 0.61
53 2 0.01
55 2 0.01
56 38 0.19
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:56491424 original size:50 final size:50
Alignment explanation
Indices: 56491349--56491448 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
56491339 ACCATTCGAC
56491349 CATATTAAGGAATCACTAGGAGAAGGGTTTTTACGACCCAAAATAATCTT
1 CATATTAAGGAATCACTAGGAGAAGGGTTTTTACGACCCAAAATAATCTT
*
56491399 CATATTAAGGAATCATTAGGAGAAGGGTTTTTACGACCCAAAATAATCTT
1 CATATTAAGGAATCACTAGGAGAAGGGTTTTTACGACCCAAAATAATCTT
56491449 TACTTACACT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (50 bp):
CATATTAAGGAATCACTAGGAGAAGGGTTTTTACGACCCAAAATAATCTT
Found at i:56493006 original size:29 final size:29
Alignment explanation
Indices: 56492952--56493043 Score: 98
Period size: 29 Copynumber: 3.2 Consensus size: 29
56492942 CTGGTCATAT
* *
56492952 GCCCGTATGCTTCACACGGTCATGTGATA
1 GCCCGTGTGCTTCACACAGTCATGTGATA
* *
56492981 GCCTGTGTGCTTCACACAGTCGTGTGATA
1 GCCCGTGTGCTTCACACAGTCATGTGATA
* *
56493010 GCCCGTGT-CCTCTACACA-ACTATGTGATA
1 GCCCGTGTGCTTC-ACACAGTC-ATGTGATA
56493039 GCCCG
1 GCCCG
56493044 AGTCCTAGGC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 4 0.08
29 49 0.92
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (29 bp):
GCCCGTGTGCTTCACACAGTCATGTGATA
Found at i:56493863 original size:40 final size:39
Alignment explanation
Indices: 56493756--56493863 Score: 101
Period size: 39 Copynumber: 2.7 Consensus size: 39
56493746 CGTTTGAGCT
* * * *
56493756 ACTTTCAATAGAATCATTAGGTATGGCTCGATAAAGCAT
1 ACTTTCAGTAGAATCAGTAAGTATGGCTCGATAAAGCAC
* * * *
56493795 ACTTTCAGTAGAATCATTAGGTAAGGCTCGATAGTA-CAC
1 ACTTTCAGTAGAATCAGTAAGTATGGCTCGATA-AAGCAC
* *
56493834 ACATTTCAGTGGGATCAGTAAGTATGGCTC
1 AC-TTTCAGTAGAATCAGTAAGTATGGCTC
56493864 AAAAGCGCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
39 35 0.60
40 23 0.40
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (39 bp):
ACTTTCAGTAGAATCAGTAAGTATGGCTCGATAAAGCAC
Found at i:56496878 original size:16 final size:16
Alignment explanation
Indices: 56496857--56496892 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
56496847 TTTGGTTCGC
56496857 TGTATTAGATTAGAGG
1 TGTATTAGATTAGAGG
*
56496873 TGTATTGGATTAGAGG
1 TGTATTAGATTAGAGG
56496889 TGTA
1 TGTA
56496893 ATAGCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.39
Consensus pattern (16 bp):
TGTATTAGATTAGAGG
Found at i:56497149 original size:18 final size:17
Alignment explanation
Indices: 56497128--56497162 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56497118 TTATTATTAA
*
56497128 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
56497146 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
56497163 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:56497299 original size:156 final size:157
Alignment explanation
Indices: 56497015--56497330 Score: 571
Period size: 156 Copynumber: 2.0 Consensus size: 157
56497005 TAGAATACCC
*
56497015 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
56497080 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
56497145 TATATAATTTAATAAAATTCTT-ATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
56497171 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
56497236 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
*
56497301 TATATAATTTGATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
56497328 TTA
1 TTA
56497331 ATATTCTTAT
Statistics
Matches: 153, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
156 146 0.95
157 7 0.05
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:56497425 original size:18 final size:17
Alignment explanation
Indices: 56497404--56497438 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56497394 TTATTATTAA
*
56497404 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
56497422 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
56497439 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:56497552 original size:14 final size:15
Alignment explanation
Indices: 56497503--56497554 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
56497493 GTAAAATATA
56497503 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
56497518 TATTAAATATATTAT
1 AATTAAATATATTAT
56497533 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
56497546 AATTTAATA
1 AATTAAATA
56497555 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:56497690 original size:120 final size:120
Alignment explanation
Indices: 56497267--56497672 Score: 710
Period size: 120 Copynumber: 3.4 Consensus size: 120
56497257 ATCATATTTA
*
56497267 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTGATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
56497332 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
56497387 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
56497452 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
56497507 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
56497572 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AAATCT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAAAT-T
* * *
56497627 GAA-ATAATTAATATTAAATATATTTTAATTATAATATATGATTTAA
1 -AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAA
56497673 AATAATTTAA
Statistics
Matches: 276, Mismatches: 7, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
119 8 0.03
120 266 0.96
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:56497806 original size:92 final size:92
Alignment explanation
Indices: 56497710--56497903 Score: 250
Period size: 92 Copynumber: 2.1 Consensus size: 92
56497700 AACTATATTT
* * * *
56497710 TATGAATTTGTATAATCTAAAATAA-TAATTATTACATATAATTTAATAATTAATAT-TAAATTT
1 TATGAATTTATACAATCTAAAATAATTAA-TATTAAATATAATTTAAT-ACTAATATAT-AATTT
**
56497773 CATAAAATGCTTGATAATAAATT-TTCTTA
63 CATAAAATGCTCAATAATAAATTGTTCTTA
* *
56497802 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATACTGATATATAATTTCAT
1 TATGAATTTATACAATCTAAAATAATTAATATTAAATATAATTTAATACTAATATATAATTTCAT
*
56497867 AAAATTCTCAATAATAAATTGTTCTTA
66 AAAATGCTCAATAATAAATTGTTCTTA
*
56497894 TATAAATTTA
1 TATGAATTTA
56497904 CTAAAATCAT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
91 31 0.35
92 55 0.62
93 3 0.03
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (92 bp):
TATGAATTTATACAATCTAAAATAATTAATATTAAATATAATTTAATACTAATATATAATTTCAT
AAAATGCTCAATAATAAATTGTTCTTA
Found at i:56501432 original size:23 final size:23
Alignment explanation
Indices: 56501405--56501477 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 23
56501395 TTATATTAAT
56501405 ATTATATAATCAAAATGATTTTA
1 ATTATATAATCAAAATGATTTTA
* * * ***
56501428 ATTATAT-TTC-AATTAAAAAT-
1 ATTATATAATCAAAATGATTTTA
56501448 ATTATATAATCAAAATGATTTTA
1 ATTATATAATCAAAATGATTTTA
56501471 ATTATAT
1 ATTATAT
56501478 TTTAATATAC
Statistics
Matches: 35, Mismatches: 12, Indels: 6
0.66 0.23 0.11
Matches are distributed among these distances:
20 7 0.20
21 7 0.20
22 7 0.20
23 14 0.40
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (23 bp):
ATTATATAATCAAAATGATTTTA
Found at i:56502405 original size:52 final size:52
Alignment explanation
Indices: 56502348--56502569 Score: 241
Period size: 52 Copynumber: 4.0 Consensus size: 52
56502338 GGTGTTAACT
*
56502348 CATTTCAAACATTTCAAAGCATTCAAAGTTAATAGTACCAAATTAACAGCAC
1 CATTTCAAACATTTCAAAGCATTCAAAGTTAACAGTACCAAATTAACAGCAC
* ** *
56502400 CATTTCAAACATTTATCAGTGAGCAAACATTTCAAAGCATTCAA-AGT-TGAAGTGGTAACAGCA
1 CATTTCAAACA-TT-TC----A--AAGCA-TTCAAAG--TT-AACAGTACCAAAT--TAACAGCA
56502463 C
52 C
*
56502464 CATTTCAAACATTTCAAAGCATTCAAAGTTAACAGTACCAAATTAACAACAC
1 CATTTCAAACATTTCAAAGCATTCAAAGTTAACAGTACCAAATTAACAGCAC
*
56502516 CATTTCAAACATTTCAAAGCATTCAAAATTAACAGTACCAAATTAACAGCAC
1 CATTTCAAACATTTCAAAGCATTCAAAGTTAACAGTACCAAATTAACAGCAC
56502568 CA
1 CA
56502570 GGACTATGCG
Statistics
Matches: 143, Mismatches: 11, Indels: 32
0.77 0.06 0.17
Matches are distributed among these distances:
52 73 0.51
53 7 0.05
54 5 0.03
55 7 0.05
56 4 0.03
58 2 0.01
60 4 0.03
61 7 0.05
62 5 0.03
63 7 0.05
64 22 0.15
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.26
Consensus pattern (52 bp):
CATTTCAAACATTTCAAAGCATTCAAAGTTAACAGTACCAAATTAACAGCAC
Found at i:56502786 original size:21 final size:22
Alignment explanation
Indices: 56502740--56502794 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
56502730 AAGCAGATGG
* *
56502740 AGCCACTGCAAATATATTATAT
1 AGCCACTGCAAACATATTACAT
*
56502762 AGCCACTGCAAACA-ATTGCAT
1 AGCCACTGCAAACATATTACAT
56502783 AGCCACATGCAA
1 AGCCAC-TGCAA
56502795 TGGGGGGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.40, C:0.25, G:0.13, T:0.22
Consensus pattern (22 bp):
AGCCACTGCAAACATATTACAT
Found at i:56504947 original size:30 final size:30
Alignment explanation
Indices: 56504881--56504960 Score: 83
Period size: 30 Copynumber: 2.6 Consensus size: 30
56504871 AAACTAAGAT
*
56504881 ATATAAAATTATTTAAATAATTATGTTGTA
1 ATATAAAATTATATAAATAATTATGTTGTA
* *
56504911 ATATAAAATTATATAATTATGTTATGATT-TA
1 ATATAAAATTATATAAATA-ATTATG-TTGTA
56504942 A-ATAAAATTACTTATAAAT
1 ATATAAAATTA--TATAAAT
56504961 CCGTGTTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
30 26 0.62
31 8 0.19
32 8 0.19
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.45
Consensus pattern (30 bp):
ATATAAAATTATATAAATAATTATGTTGTA
Found at i:56521998 original size:16 final size:16
Alignment explanation
Indices: 56521977--56522014 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
56521967 GCTTGAACCG
*
56521977 AAAAAATTTGAGTTTA
1 AAAAAATTTGAGATTA
56521993 AAAAAA--TGAGATTA
1 AAAAAATTTGAGATTA
56522007 AAAAAATT
1 AAAAAATT
56522015 CAAGCTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
14 13 0.68
16 6 0.32
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.29
Consensus pattern (16 bp):
AAAAAATTTGAGATTA
Found at i:56526044 original size:132 final size:132
Alignment explanation
Indices: 56525807--56526618 Score: 1381
Period size: 132 Copynumber: 6.2 Consensus size: 132
56525797 CACTGCAACT
* ** * *
56525807 TTAGGGAGATAAGATTTGGTGGCTTAAATCTACTTCCCACTGTCTTGGAAAGATAAGATTCGCCG
1 TTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCG
* * *
56525872 ACTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTATAATCTTCAACCTTCTCCGCTACT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTACT
56525937 GC
131 GC
56525939 TTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCG
1 TTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCG
*
56526004 TCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTTCTCCGCTACT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTACT
*
56526069 GT
131 GC
*
56526071 TTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCG
1 TTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCG
56526136 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTACT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTACT
56526201 GC
131 GC
* * *
56526203 TCAGGGAGACAAGGCTTGTTAGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCG
1 TTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCG
* * *
56526268 TCTTCGATCTGGTCCACTACTGTTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTACT
56526333 GC
131 GC
56526335 TTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCG
1 TTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCG
* *
56526400 TCTTCGATCTGCTCCACTACTGCTTAGGGAGAGAAGATCTACAATCTTCAACCTTCTCCGCTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTACT
56526465 GC
131 GC
* *
56526467 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGTCG
1 TTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCG
* * * *
56526532 TCTTCTATCTGCTCAACTACTACTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCT
66 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTACT
56526597 GC
131 GC
* *
56526599 TCAAGGAGACAAGGCTTGGT
1 TTAGGGAGACAAGGCTTGGT
56526619 TACCGATCTG
Statistics
Matches: 647, Mismatches: 33, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 647 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (132 bp):
TTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCG
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTACT
GC
Found at i:56526448 original size:44 final size:44
Alignment explanation
Indices: 56525873--56526582 Score: 200
Period size: 44 Copynumber: 16.1 Consensus size: 44
56525863 GATTCGCCGA
* * *
56525873 CTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTATAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * * * ***
56525917 CTTCAACCTTCTCCGCTACTGCTTAGGGAGACAAG-GCT-TGGT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * **
56525959 GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGAT-TCGCCGT
1 --CTTCAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCT-ACAAT
* *
56526005 CTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * * * * ***
56526049 CTTCAACCTTCTCCGCTACTGTTTAGGGAGACAAG-GCT-TGGT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * * **
56526091 GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTTGCCGT
1 --CTTCAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCTACAAT
*
56526137 CTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * * * * *** *
56526181 CTTCAACCTTCTCCGCTACTGCTCAGGGAGACAAG-GCTTGTTAG
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATC-TACAAT
* * * **
56526225 CTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGAT-TCGCCGT
1 CTTCAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCT-ACAAT
* * *
56526269 CTTCGATCTGGTCCACTACTGTTTAGGGAGATAAGATCTACAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * * * * ***
56526313 CTTCAACCTTCTCCGCTGCTGCTTAGGGAGACAAG-GCT-TGGT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * **
56526355 GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGAT-TCGCCGT
1 --CTTCAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCT-ACAAT
* *
56526401 CTTCGATCTGCTCCACTACTGCTTAGGGAGAGAAGATCTACAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * * * * * ***
56526445 CTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAG-GCT-TGGT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * *
56526487 GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTCGT-C-GT
1 --CTTCAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGA-TC-TACAAT
* * *
56526533 CTTCTATCTGCTCAACTACTACTTAGGGAGATAAGATCTACAAT
1 CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
56526577 CTTCAA
1 CTTCAA
56526583 CCTTCTCCGC
Statistics
Matches: 472, Mismatches: 137, Indels: 114
0.65 0.19 0.16
Matches are distributed among these distances:
42 35 0.07
43 33 0.07
44 347 0.74
45 24 0.05
46 32 0.07
47 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
Found at i:56534429 original size:41 final size:41
Alignment explanation
Indices: 56534372--56534451 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
56534362 GTTGTTTCTT
56534372 TCTTCAATGTTGAGCACCGAGCCCTTCCCTTTGTCAACTGC
1 TCTTCAATGTTGAGCACCGAGCCCTTCCCTTTGTCAACTGC
*
56534413 TCTTCAATGTTGAGCACCGAGCCCTTTCCTTTGTCAACT
1 TCTTCAATGTTGAGCACCGAGCCCTTCCCTTTGTCAACT
56534452 CCTCCAGTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.17, C:0.33, G:0.16, T:0.34
Consensus pattern (41 bp):
TCTTCAATGTTGAGCACCGAGCCCTTCCCTTTGTCAACTGC
Found at i:56538965 original size:11 final size:11
Alignment explanation
Indices: 56538949--56538973 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
56538939 AAAAAACACG
56538949 CGGAGCCGGGT
1 CGGAGCCGGGT
56538960 CGGAGCCGGGT
1 CGGAGCCGGGT
56538971 CGG
1 CGG
56538974 TCTCCCCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.56, T:0.08
Consensus pattern (11 bp):
CGGAGCCGGGT
Found at i:56540251 original size:12 final size:11
Alignment explanation
Indices: 56540223--56540252 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
56540213 TTATATTTTT
56540223 TATTTTTAAAA
1 TATTTTTAAAA
56540234 TATTTTTAAAA
1 TATTTTTAAAA
56540245 TACTTTTT
1 TA-TTTTT
56540253 TAATTTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:56549081 original size:20 final size:21
Alignment explanation
Indices: 56549043--56549081 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
56549033 CACCAAAAAG
*
56549043 AACAAGCAACAAACGGAGAAA
1 AACAAGCAACAAACCGAGAAA
*
56549064 AACAA-CAAGAAACCGAGA
1 AACAAGCAACAAACCGAGA
56549082 TCCAAAGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.62, C:0.21, G:0.18, T:0.00
Consensus pattern (21 bp):
AACAAGCAACAAACCGAGAAA
Found at i:56561971 original size:18 final size:18
Alignment explanation
Indices: 56561944--56562036 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
56561934 CCCAACTACT
*
56561944 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
56561962 GTATATGTGAATAGTGCC
1 GTATACGTGAATAGTACC
56561980 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
56561998 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
56562016 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
56562034 GTA
1 GTA
56562037 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:56561996 original size:36 final size:36
Alignment explanation
Indices: 56561944--56562036 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
56561934 CCCAACTACT
* *
56561944 GTATACGTGAACAGTACCGTATATGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
56561980 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
56562016 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
56562037 AACGGTCGTA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:56565141 original size:37 final size:37
Alignment explanation
Indices: 56565100--56565285 Score: 309
Period size: 37 Copynumber: 5.0 Consensus size: 37
56565090 GCTGAAGCTA
* *
56565100 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
56565137 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
* *
56565174 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
56565211 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
56565248 CCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
56565285 C
1 C
56565286 TAAAACTACC
Statistics
Matches: 142, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 142 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (37 bp):
CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
Found at i:56567425 original size:15 final size:15
Alignment explanation
Indices: 56567405--56567435 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
56567395 GTTCATATTG
*
56567405 TCCAACCTCTTTAGA
1 TCCAACATCTTTAGA
56567420 TCCAACATCTTTAGA
1 TCCAACATCTTTAGA
56567435 T
1 T
56567436 TTTCCAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (15 bp):
TCCAACATCTTTAGA
Found at i:56573160 original size:18 final size:18
Alignment explanation
Indices: 56573123--56573165 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
56573113 TTTGAAAATT
* **
56573123 AAAATATATAAACATTTA
1 AAAATATATAAAAACATA
56573141 AAAATATATAAAAACATA
1 AAAATATATAAAAACATA
56573159 AAAATAT
1 AAAATAT
56573166 TTTTTTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAATATATAAAAACATA
Found at i:56598574 original size:20 final size:21
Alignment explanation
Indices: 56598528--56598574 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
56598518 CAAGATAAAT
56598528 ATTAATTTAATTTAATATTAAG
1 ATTAA-TTAATTTAATATTAAG
*
56598550 A-TAATTACTTTAATATTAA-
1 ATTAATTAATTTAATATTAAG
56598569 ATTAAT
1 ATTAAT
56598575 AAAATACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 1 0.04
20 18 0.78
21 3 0.13
22 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTAATTAATTTAATATTAAG
Found at i:56609284 original size:50 final size:50
Alignment explanation
Indices: 56609224--56609327 Score: 172
Period size: 50 Copynumber: 2.1 Consensus size: 50
56609214 ATTCTGCACC
*
56609224 CAAGCAACATGCTTCGGAATTAGGCCTTATTTCTGTTGAAACTAAAAAGG
1 CAAGCAACATGCTTCCGAATTAGGCCTTATTTCTGTTGAAACTAAAAAGG
* * *
56609274 CAAGCTACATGCTTCCGAATTAGGCCTTATTTCTGTTGGAACTAAGAAGG
1 CAAGCAACATGCTTCCGAATTAGGCCTTATTTCTGTTGAAACTAAAAAGG
56609324 CAAG
1 CAAG
56609328 TTAAGGACTA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (50 bp):
CAAGCAACATGCTTCCGAATTAGGCCTTATTTCTGTTGAAACTAAAAAGG
Found at i:56615469 original size:18 final size:18
Alignment explanation
Indices: 56615446--56615480 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56615436 ATGTATATAA
* *
56615446 AAAGAAAGCAAATAATAC
1 AAAGAAAACAAAAAATAC
56615464 AAAGAAAACAAAAAATA
1 AAAGAAAACAAAAAATA
56615481 GGCAATAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.09, G:0.09, T:0.09
Consensus pattern (18 bp):
AAAGAAAACAAAAAATAC
Found at i:56630554 original size:50 final size:50
Alignment explanation
Indices: 56630494--56630597 Score: 172
Period size: 50 Copynumber: 2.1 Consensus size: 50
56630484 ATTCTGCACC
*
56630494 CAAGCAACATGCTTCGGAATTAGGCCTTATTTCTGTTGAAACTAAAAAGG
1 CAAGCAACATGCTTCCGAATTAGGCCTTATTTCTGTTGAAACTAAAAAGG
* * *
56630544 CAAGCTACATGCTTCCGAATTAGGCCTTATTTCTGTTGGAACTAAGAAGG
1 CAAGCAACATGCTTCCGAATTAGGCCTTATTTCTGTTGAAACTAAAAAGG
56630594 CAAG
1 CAAG
56630598 TTAAGGACTA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (50 bp):
CAAGCAACATGCTTCCGAATTAGGCCTTATTTCTGTTGAAACTAAAAAGG
Found at i:56636742 original size:18 final size:18
Alignment explanation
Indices: 56636719--56636753 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56636709 ATGTATATAA
* *
56636719 AAAGAAAGCAAATAATAC
1 AAAGAAAACAAAAAATAC
56636737 AAAGAAAACAAAAAATA
1 AAAGAAAACAAAAAATA
56636754 GGCAATAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.09, G:0.09, T:0.09
Consensus pattern (18 bp):
AAAGAAAACAAAAAATAC
Found at i:56639710 original size:22 final size:22
Alignment explanation
Indices: 56639679--56639739 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
56639669 TTAATATTAA
*
56639679 TATAAAAATTTTATTTAATTTT
1 TATAAAAATTTTATATAATTTT
*
56639701 TATAACAATTATT-TATAATTTT
1 TATAAAAATT-TTATATAATTTT
*
56639723 TATAATACATTTTATAT
1 TATAA-AAATTTTATAT
56639740 TTTATATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
22 24 0.75
23 8 0.25
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (22 bp):
TATAAAAATTTTATATAATTTT
Found at i:56648732 original size:28 final size:30
Alignment explanation
Indices: 56648692--56648747 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
56648682 AAATCTAATA
*
56648692 TTTTTTAATATG-TTTATAAAGGAAATATT
1 TTTTTTAATATGTTTTATAAAGAAAATATT
*
56648721 TTTTTTGA-ATGTTTTATAAAGAAAATA
1 TTTTTTAATATGTTTTATAAAGAAAATA
56648748 ATTACTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (30 bp):
TTTTTTAATATGTTTTATAAAGAAAATATT
Found at i:56648763 original size:28 final size:29
Alignment explanation
Indices: 56648704--56648763 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
56648694 TTTTAATATG
* **
56648704 TTTATAAAGGAAATATTTTTTTTGAATGT
1 TTTATAAAGAAAATATTACTTTTGAATGT
56648733 TTTATAAAGAAAATAATTACTTTT-AA-GT
1 TTTATAAAGAAAAT-ATTACTTTTGAATGT
56648761 TTT
1 TTT
56648764 TTTCCTTCCG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.19
29 15 0.56
30 7 0.26
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (29 bp):
TTTATAAAGAAAATATTACTTTTGAATGT
Found at i:56651273 original size:23 final size:24
Alignment explanation
Indices: 56651223--56651274 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
56651213 AAATTGAAAT
*
56651223 AAAAATAAATAAAAGAGTAAATTA
1 AAAAATAAATAAAAGAATAAATTA
*
56651247 AAAAATAAA-AAAA-AATTAATTA
1 AAAAATAAATAAAAGAATAAATTA
56651269 CAAAAA
1 -AAAAA
56651275 CATTAAAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.28
23 9 0.36
24 9 0.36
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (24 bp):
AAAAATAAATAAAAGAATAAATTA
Found at i:56651574 original size:22 final size:21
Alignment explanation
Indices: 56651539--56651634 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 21
56651529 AAAGGGTATC
* *
56651539 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
56651560 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
56651583 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
56651602 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
56651621 TGCATATCATATCT
1 TACAAATCATATCT
56651635 AAGATTGCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
19 34 0.54
21 4 0.06
22 15 0.24
23 10 0.16
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:56651582 original size:23 final size:22
Alignment explanation
Indices: 56651539--56651596 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
56651529 AAAGGGTATC
* *
56651539 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
56651560 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
56651583 TGCATATCATATCT
1 TACAAATCATATCT
56651597 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:56651599 original size:19 final size:19
Alignment explanation
Indices: 56651575--56651647 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
56651565 AATCATATCT
56651575 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
56651594 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
56651613 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
56651632 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
56651648 CCTGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:56655861 original size:46 final size:46
Alignment explanation
Indices: 56655808--56655966 Score: 270
Period size: 46 Copynumber: 3.5 Consensus size: 46
56655798 TGATCAGTGA
*
56655808 CAAGTGACAAAGTGGTAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
56655854 CAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
56655900 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
56655946 C-AG-GA-ACAAGTGATAAGTGGT
1 CAAGTGACA-AAGTGATAAGTGGT
56655967 GACAAAGTGA
Statistics
Matches: 109, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
43 1 0.01
44 16 0.15
45 2 0.02
46 90 0.83
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (46 bp):
CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
Found at i:56655974 original size:62 final size:64
Alignment explanation
Indices: 56655903--56656030 Score: 226
Period size: 62 Copynumber: 2.0 Consensus size: 64
56655893 ATCTGATCAA
56655903 GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC-AG-GA-ACAAGTGATAAGTG
1 GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACA-AAGTGATAAGTG
56655965 GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
1 GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
56656029 GT
1 GT
56656031 AGCCTAACTA
Statistics
Matches: 63, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
62 44 0.70
63 2 0.03
64 16 0.25
65 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (64 bp):
GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
Found at i:56655993 original size:108 final size:107
Alignment explanation
Indices: 56655857--56656071 Score: 385
Period size: 108 Copynumber: 2.0 Consensus size: 107
56655847 ATCTGATCAA
56655857 GTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGG
1 GTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGG
* *
56655922 TAGCTTTAGCTACACTTATCTGATCAGGAACAAGTGATAAGTG
66 TAGC-CTAACTACACTTATCTGATCAGGAACAAGTGATAAGTG
*
56655965 GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGG
1 GTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGG
*
56656030 TAGCCTAACTACACTTATCTGATCAGGGACAAGTGATAAGTG
66 TAGCCTAACTACACTTATCTGATCAGGAACAAGTGATAAGTG
56656072 ATCATACGTA
Statistics
Matches: 103, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
107 35 0.34
108 68 0.66
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (107 bp):
GTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGG
TAGCCTAACTACACTTATCTGATCAGGAACAAGTGATAAGTG
Found at i:56656030 original size:46 final size:44
Alignment explanation
Indices: 56655965--56656071 Score: 162
Period size: 46 Copynumber: 2.4 Consensus size: 44
56655955 GTGATAAGTG
* *
56655965 GTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAA
1 GTGACAAAGTGATAAGTGGTAGC-CTAACTACACTTATCTGATC-A
56656011 GTGACAAAGTGATAAGTGGTAGCCTAACTACACTTATCTGATCA
1 GTGACAAAGTGATAAGTGGTAGCCTAACTACACTTATCTGATCA
*
56656055 GGGAC-AAGTGATAAGTG
1 GTGACAAAGTGATAAGTG
56656072 ATCATACGTA
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
43 12 0.21
44 5 0.09
45 18 0.31
46 23 0.40
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (44 bp):
GTGACAAAGTGATAAGTGGTAGCCTAACTACACTTATCTGATCA
Found at i:56658910 original size:11 final size:11
Alignment explanation
Indices: 56658894--56658924 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
56658884 TTGGCGGAAA
56658894 AGACCATGGTT
1 AGACCATGGTT
56658905 AGACCATGGTT
1 AGACCATGGTT
56658916 AGACCATGG
1 AGACCATGG
56658925 CATTACATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (11 bp):
AGACCATGGTT
Found at i:56659031 original size:44 final size:41
Alignment explanation
Indices: 56658983--56659092 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 41
56658973 ATGAGTCTTT
*
56658983 GTGTAAGACCATATCTGGTATATAGCATCGATATATGTGATTAC
1 GTGTAAGACCATATCTGG-ATATAGCATCG--ATATGTGATAAC
* * *
56659027 GTGTAAGACCATGTCTAGGACATTGGCATCGATATGTGATAAC
1 GTGTAAGACCATATCT-GGATA-TAGCATCGATATGTGATAAC
* *
56659070 ATGTAAGATCATATCTGGGATAT
1 GTGTAAGACCATATCT-GGATAT
56659093 GACATTGTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 6
0.79 0.13 0.09
Matches are distributed among these distances:
42 1 0.02
43 28 0.51
44 17 0.31
45 9 0.16
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGATATAGCATCGATATGTGATAAC
Found at i:56660450 original size:57 final size:57
Alignment explanation
Indices: 56660362--56660477 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
56660352 GTTATTTTAC
*
56660362 TTAGAAAATTACTGAAGTTAGTTGAGTAAGTAGTGTATGGATTGGTTATACTTACAA
1 TTAGAAAATTACTAAAGTTAGTTGAGTAAGTAGTGTATGGATTGGTTATACTTACAA
56660419 TTAGAAAATTACTAAAGTTAGTTGAGTAAGTAGTGTATGGATTGGTTATACTTACAA
1 TTAGAAAATTACTAAAGTTAGTTGAGTAAGTAGTGTATGGATTGGTTATACTTACAA
56660476 TT
1 TT
56660478 GAGATTCGAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (57 bp):
TTAGAAAATTACTAAAGTTAGTTGAGTAAGTAGTGTATGGATTGGTTATACTTACAA
Found at i:56668209 original size:29 final size:29
Alignment explanation
Indices: 56668177--56668424 Score: 155
Period size: 29 Copynumber: 8.5 Consensus size: 29
56668167 TAATCGTCCA
*
56668177 TTTTTATATTCGATGGTCGAAACCATCCC
1 TTTTCATATTCGATGGTCGAAACCATCCC
* **
56668206 TTTTCATTAATCGATGGTCGTCACCATCCC
1 TTTTCA-TATTCGATGGTCGAAACCATCCC
* **
56668236 TTTTCATAGTT-GATGGTTGTCACCATCCC
1 TTTTCATA-TTCGATGGTCGAAACCATCCC
* * * * * *
56668265 TTTTCATAATCGATAGTCGAAGCTAACCT
1 TTTTCATATTCGATGGTCGAAACCATCCC
* * **
56668294 TTTTCATATTCGATAG-CCAAAGTTATCCC
1 TTTTCATATTCGATGGTCGAAA-CCATCCC
* ** * *
56668323 TTTTCATATTAGAT-AACTGAAGCTATCCC
1 TTTTCATATTCGATGGTC-GAAACCATCCC
** *
56668352 TTTTCATATTCGATGGTCGTCACCATCCT
1 TTTTCATATTCGATGGTCGAAACCATCCC
* * *
56668381 TTTTCATAATT-GATAG-CTGAAGCTATCCC
1 TTTTCAT-ATTCGATGGTC-GAAACCATCCC
56668410 TTTTCATATTCGATG
1 TTTTCATATTCGATG
56668425 ATCGCAGATA
Statistics
Matches: 168, Mismatches: 41, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
28 8 0.05
29 127 0.76
30 33 0.20
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.39
Consensus pattern (29 bp):
TTTTCATATTCGATGGTCGAAACCATCCC
Found at i:56668351 original size:87 final size:87
Alignment explanation
Indices: 56668260--56668419 Score: 216
Period size: 87 Copynumber: 1.8 Consensus size: 87
56668250 GGTTGTCACC
* *
56668260 ATCCCTTTTCATAATCGATAGTCG-AAGCTAACCTTTTTCAT-ATTCGATAGCCAAAGTTATCCC
1 ATCCCTTTTCATAATCGATAGTCGTAA-CCAACCTTTTTCATAATT-GATAGCCAAAGCTATCCC
56668323 TTTTCATATTAGATAACTGAAGCT
64 TTTTCATATTAGATAACTGAAGCT
* * * * **
56668347 ATCCCTTTTCATATTCGATGGTCGTCACCATCCTTTTTCATAATTGATAGCTGAAGCTATCCCTT
1 ATCCCTTTTCATAATCGATAGTCGTAACCAACCTTTTTCATAATTGATAGCCAAAGCTATCCCTT
56668412 TTCATATT
66 TTCATATT
56668420 CGATGATCGC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 59 0.94
88 4 0.06
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.39
Consensus pattern (87 bp):
ATCCCTTTTCATAATCGATAGTCGTAACCAACCTTTTTCATAATTGATAGCCAAAGCTATCCCTT
TTCATATTAGATAACTGAAGCT
Found at i:56668385 original size:58 final size:57
Alignment explanation
Indices: 56668231--56668424 Score: 196
Period size: 58 Copynumber: 3.4 Consensus size: 57
56668221 GGTCGTCACC
* * *
56668231 ATCCCTTTTCATAGTT-GATGGTTGTCACCATCCCTTTTCATAATCGAT-AGTCGAAGCT
1 ATCCCTTTTCATA-TTCGATGGTCGTCACCATCCCTTTTCAT-ATTGATAACT-GAAGCT
* * * *** **
56668289 AACCTTTTTCATATTCGATAG-CCAAAGTTATCCCTTTTCATATTAGATAACTGAAGCT
1 ATCCCTTTTCATATTCGATGGTCGTCA-CCATCCCTTTTCATATT-GATAACTGAAGCT
* *
56668347 ATCCCTTTTCATATTCGATGGTCGTCACCATCCTTTTTCATAATTGATAGCTGAAGCT
1 ATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCAT-ATTGATAACTGAAGCT
56668405 ATCCCTTTTCATATTCGATG
1 ATCCCTTTTCATATTCGATG
56668425 ATCGCAGATA
Statistics
Matches: 109, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
57 5 0.05
58 97 0.89
59 7 0.06
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (57 bp):
ATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATATTGATAACTGAAGCT
Found at i:56683034 original size:4 final size:4
Alignment explanation
Indices: 56683025--56683049 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
56683015 TTAATTAGTA
56683025 ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT A
56683050 TGTAAGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:56697483 original size:18 final size:18
Alignment explanation
Indices: 56697460--56697552 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
56697450 CCCAACTACT
*
56697460 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
56697478 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
56697496 GTATACGTGAATAGTATC
1 GTATACGTGAATAGTACC
*
56697514 GTATACGTGAATAGTTCC
1 GTATACGTGAATAGTACC
*
56697532 GTATACATGAATAGTACC
1 GTATACGTGAATAGTACC
56697550 GTA
1 GTA
56697553 AACGATTGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:56702280 original size:52 final size:52
Alignment explanation
Indices: 56702201--56702469 Score: 388
Period size: 52 Copynumber: 5.2 Consensus size: 52
56702191 TACTTCTGAT
* **
56702201 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* * *
56702254 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
56702306 C------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
56702352 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
** *
56702404 CAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
*
56702456 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
56702470 GCTACACTTA
Statistics
Matches: 197, Mismatches: 12, Indels: 14
0.88 0.05 0.06
Matches are distributed among these distances:
46 44 0.22
52 136 0.69
53 17 0.09
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (52 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
Found at i:56702315 original size:98 final size:98
Alignment explanation
Indices: 56702195--56702469 Score: 415
Period size: 98 Copynumber: 2.7 Consensus size: 98
56702185 TTTGAGTACT
*
56702195 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
56702260 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTACACTTA
**
56702293 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
56702358 AAAAGTGATAAGTGATAGCTTCGGCTACACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTACACTTA
*
56702391 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGA
*
56702456 CAAAGTGATAAGTG
60 C-AAGTGAAAAGTG
56702470 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
98 106 0.66
104 43 0.27
105 11 0.07
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTACACTTA
Found at i:56702477 original size:37 final size:37
Alignment explanation
Indices: 56702433--56702615 Score: 307
Period size: 37 Copynumber: 5.0 Consensus size: 37
56702423 GATAGCTTTA
56702433 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
56702470 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
56702507 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* *
56702544 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
56702581 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
56702616 ATCATACGTA
Statistics
Matches: 141, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 126 0.89
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:56706155 original size:31 final size:31
Alignment explanation
Indices: 56706097--56706156 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
56706087 AATATAAAGA
* **
56706097 ATTCTTTCATTACTTAATACATTTTCATTGT
1 ATTCTTTCAATACTTAATACAGGTTCATTGT
*
56706128 ATTCTTTCAATACTTAGTACAGGTTCATT
1 ATTCTTTCAATACTTAATACAGGTTCATT
56706157 CATTCAATAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.50
Consensus pattern (31 bp):
ATTCTTTCAATACTTAATACAGGTTCATTGT
Done.