Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 237 of 770
Found at i:70984150 original size:40 final size:40
Alignment explanation
Indices: 70984023--70984152 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
70984013 ATGCTGGAAA
* *
70984023 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
70984063 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
70984103 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
70984143 TTATATCCGG
1 TTATATCCGG
70984153 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:70991508 original size:22 final size:22
Alignment explanation
Indices: 70991483--70991525 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
70991473 AAGGAAGTTT
70991483 TTTCCCTACCTCAT-ACATTTTA
1 TTTCCCTACC-CATGACATTTTA
* *
70991505 TTTCTCTTCCCATGACATTTT
1 TTTCCCTACCCATGACATTTT
70991526 CTGTACAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.19, C:0.30, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTCCCTACCCATGACATTTTA
Found at i:71000213 original size:5 final size:5
Alignment explanation
Indices: 71000203--71000230 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
71000193 CGAGTCTGCT
71000203 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
71000231 ATGTTGCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:71000295 original size:12 final size:12
Alignment explanation
Indices: 71000280--71000321 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
71000270 TAAAAAATGA
*
71000280 AAAAAAAACTTG
1 AAAAAAAATTTG
71000292 -AAAAAAATTTG
1 AAAAAAAATTTG
**
71000303 TTAAAAAATTTG
1 AAAAAAAATTTG
71000315 AAAAAAA
1 AAAAAAA
71000322 TAAAAAGTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (12 bp):
AAAAAAAATTTG
Found at i:71000319 original size:11 final size:11
Alignment explanation
Indices: 71000281--71000322 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
71000271 AAAAAATGAA
*
71000281 AAAAAAACTTG
1 AAAAAAATTTG
71000292 AAAAAAATTTG
1 AAAAAAATTTG
*
71000303 TTAAAAAATTTG
1 -AAAAAAATTTG
71000315 AAAAAAAT
1 AAAAAAAT
71000323 AAAAAGTGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.26
Consensus pattern (11 bp):
AAAAAAATTTG
Found at i:71000627 original size:16 final size:16
Alignment explanation
Indices: 71000616--71000666 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
71000606 AGATTTTATA
71000616 TTTTATTTATTTCTAT
1 TTTTATTTATTTCTAT
*
71000632 TTTTATTTATTTGTTAT
1 TTTTATTTATTT-CTAT
*
71000649 TTTTA-TAATTT-TAT
1 TTTTATTTATTTCTAT
71000663 TTTT
1 TTTT
71000667 CAGGCTTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 7 0.22
16 17 0.53
17 8 0.25
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (16 bp):
TTTTATTTATTTCTAT
Found at i:71000638 original size:6 final size:6
Alignment explanation
Indices: 71000609--71000700 Score: 50
Period size: 6 Copynumber: 14.8 Consensus size: 6
71000599 ATTATTTAGA
*
71000609 TTTTAT ATTTTA- -TTTAT TTCTAT TTTTA- -TTTAT TTGTTAT TTTTAT
1 TTTTAT -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT-TTAT TTTTAT
* *
71000655 AATTTTAT TTTTCAGGC TTATAT GTTTTA- TTTTAT TTTTAT TTTTA
1 --TTTTAT TTTT-A--T TTTTAT -TTTTAT TTTTAT TTTTAT TTTTA
71000701 ACTTGACTGT
Statistics
Matches: 67, Mismatches: 6, Indels: 25
0.68 0.06 0.26
Matches are distributed among these distances:
4 8 0.12
5 5 0.07
6 28 0.42
7 16 0.24
8 7 0.10
9 3 0.04
ACGTcount: A:0.21, C:0.03, G:0.04, T:0.72
Consensus pattern (6 bp):
TTTTAT
Found at i:71000651 original size:17 final size:16
Alignment explanation
Indices: 71000609--71000666 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
71000599 ATTATTTAGA
71000609 TTTTATATTTTATTTAT
1 TTTTAT-TTTTATTTAT
*
71000626 TTCTATTTTTATTTAT
1 TTTTATTTTTATTTAT
*
71000642 TTGTTATTTTTA--TAA
1 TT-TTATTTTTATTTAT
71000657 TTTTATTTTT
1 TTTTATTTTT
71000667 CAGGCTTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
14 8 0.22
15 4 0.11
16 12 0.32
17 13 0.35
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (16 bp):
TTTTATTTTTATTTAT
Found at i:71006238 original size:40 final size:40
Alignment explanation
Indices: 71006182--71006398 Score: 276
Period size: 40 Copynumber: 5.5 Consensus size: 40
71006172 CGATGATAAT
*
71006182 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGTTACTATATC
* * *
71006222 TGGGCTAAGAACCGAAGGCATTTGTGCTAGTTGCTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGTTACTATATC
* * * *
71006262 CAGGCCAAGTCCCGAAGGCATTTGTGCTAGTTGCTATATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGTTACTATATC
* * *
71006302 CGGGCTAAGTCCCGAAGGCATTTGGGCTAGTTACTATATT
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGTTACTATATC
* * * *
71006342 CGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTTTATC
1 CGGGCTAAGACCCGAAGGCATTTGTGCTAGTTACTATATC
71006382 C-GGCTAA-ATCCCGAAGG
1 CGGGCTAAGA-CCCGAAGG
71006399 TACTTGGGTT
Statistics
Matches: 155, Mismatches: 21, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
38 1 0.01
39 14 0.09
40 140 0.90
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGACCCGAAGGCATTTGTGCTAGTTACTATATC
Found at i:71008625 original size:28 final size:28
Alignment explanation
Indices: 71008556--71008656 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
71008546 GACAAGATTG
* * * *
71008556 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
71008586 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
71008614 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
71008643 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
71008657 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:71014311 original size:28 final size:28
Alignment explanation
Indices: 71014242--71014342 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
71014232 GACAAGATTG
* * * *
71014242 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
71014272 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
71014300 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
71014329 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
71014343 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:71024071 original size:40 final size:40
Alignment explanation
Indices: 71024013--71024220 Score: 294
Period size: 40 Copynumber: 5.2 Consensus size: 40
71024003 CGGATGATAA
* *
71024013 CCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
71024053 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * *
71024093 CCGGGCTAAGTCCCGAAGCCATTTGTGCTAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * **
71024133 CCGGGCTAAGTCCCGAAGGCATTTCG-GCTAGTTATTATAT
1 CCGGGCTAAGACCCGAAGGCATTT-GTGCGAGTTGCTATAT
* *
71024173 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTTTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
71024213 CC-GGCTAA
1 CCGGGCTAA
71024221 ATCTCGAAGG
Statistics
Matches: 152, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 6 0.04
40 145 0.95
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:71027319 original size:30 final size:30
Alignment explanation
Indices: 71027261--71027320 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
71027251 TTCTCGAGCC
*
71027261 TAGGGGCAAAAGTGTAATTATGCTAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
* *
71027291 TAGGGGCAAAAGTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
71027321 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAATTATGCAAAAGTT
Found at i:71027899 original size:93 final size:93
Alignment explanation
Indices: 71027740--71027910 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
71027730 GGATGGTTAA
* *
71027740 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCGTTGAGT
71027805 TGAGTTCGAGTTCGTGAGATGTAACTAG
66 TGAGTTCGAGTTCGTGAGATGTAACTAG
* *
71027833 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCGTTGAGT
71027898 TGAGTTCGAGTTC
66 TGAGTTCGAGTTC
71027911 ACTTAGGAGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTTCGAGTTCGTGAGATGTAACTAG
Found at i:71027913 original size:46 final size:46
Alignment explanation
Indices: 71027744--71027915 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
71027734 GGTTAAGCAT
* *
71027744 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * * * *
71027790 CTGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC
71027835 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* *
71027883 CCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
71027916 GGAGCGGGTT
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 2 0.02
46 57 0.55
47 26 0.25
48 4 0.04
50 5 0.05
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:71030978 original size:28 final size:28
Alignment explanation
Indices: 71030913--71031011 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
71030903 TCATGAATTG
* * *
71030913 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
71030942 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
71030970 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
71030998 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
71031012 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:71036534 original size:40 final size:40
Alignment explanation
Indices: 71036457--71036633 Score: 254
Period size: 40 Copynumber: 4.5 Consensus size: 40
71036447 AAACCAAGTA
* *
71036457 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
71036496 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
71036536 CCTTCGGGACTTAGCCC-GATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
71036575 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
71036615 CCTTTGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
71036634 TTATCATCTG
Statistics
Matches: 127, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
39 53 0.42
40 74 0.58
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:71036588 original size:79 final size:79
Alignment explanation
Indices: 71036457--71036632 Score: 257
Period size: 79 Copynumber: 2.2 Consensus size: 79
71036447 AAACCAAGTA
* * * *
71036457 CCTTCGGGATTTAGCCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-TTATAG
1 CCTTCGGGACTTAGCCCGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAG
*
71036521 TAACTCGCACAAATG
65 TAACTAGCACAAATG
71036536 CCTTCGGGACTTAGCCCGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCCCGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAG
*
71036600 TCACTAGCACAAATG
65 TAACTAGCACAAATG
*
71036615 CCTTTGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
71036633 GTTATCATCT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
78 1 0.01
79 86 0.98
80 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
AACTAGCACAAATG
Found at i:71043260 original size:2 final size:2
Alignment explanation
Indices: 71043253--71043277 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
71043243 ATGAATGAAG
71043253 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
71043278 ATAATTATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:71043383 original size:30 final size:30
Alignment explanation
Indices: 71043317--71043410 Score: 125
Period size: 30 Copynumber: 3.1 Consensus size: 30
71043307 AAATGTGATA
* * * * *
71043317 TTGATAATATAATTTGGTTTAGTTTAATTACG
1 TTGATAATATCA-TTGGGTT-GTTTATTTGCT
71043349 TTGATAATATCATTGGGTTGTTTATTTGCT
1 TTGATAATATCATTGGGTTGTTTATTTGCT
71043379 TTGATAATATCATTGGGTTGTTTATTTGCT
1 TTGATAATATCATTGGGTTGTTTATTTGCT
71043409 TT
1 TT
71043411 TGGCTTACTA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
30 40 0.70
31 6 0.11
32 11 0.19
ACGTcount: A:0.23, C:0.05, G:0.18, T:0.53
Consensus pattern (30 bp):
TTGATAATATCATTGGGTTGTTTATTTGCT
Found at i:71051587 original size:49 final size:49
Alignment explanation
Indices: 71051534--71051765 Score: 232
Period size: 49 Copynumber: 4.7 Consensus size: 49
71051524 CTGGTACGCA
*
71051534 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
** ** * *
71051583 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * * ** * *
71051633 CAGTCGCCTGCACTCAGTACTACACACGTGATCGAAGTTATTGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACG
* *
71051684 TAATAGCC-GACACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTG-CACTTAGTACTACACACGCGACCAATTATCCGGTACACG
* * *
71051733 TAATAGCCTACACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
71051766 TCACAATAGA
Statistics
Matches: 145, Mismatches: 33, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
49 69 0.48
50 45 0.31
51 31 0.21
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:71053480 original size:27 final size:27
Alignment explanation
Indices: 71053448--71053566 Score: 125
Period size: 27 Copynumber: 4.4 Consensus size: 27
71053438 AGGCATAATC
* *
71053448 GTCATTTTACCATATAGGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACA
* * *
71053475 GCCATTTTACCCTAC-GAGGGCATTACT
1 GTCATTTTACCCTACAG-GGGTATTACA
* *
71053502 GTCATTTTATCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACA
* *
71053529 GTCATTTTACCCTACAAGGGTATTA-G
1 GTCATTTTACCCTACAGGGGTATTACA
71053555 GATCATTTTACC
1 G-TCATTTTACC
71053567 TTTTTTGGGT
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.04
27 74 0.95
28 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACA
Found at i:71053521 original size:54 final size:54
Alignment explanation
Indices: 71053448--71053566 Score: 152
Period size: 54 Copynumber: 2.2 Consensus size: 54
71053438 AGGCATAATC
* *
71053448 GTCATTTTACCATATAGGGGTATTACAGCCATTTTACCCTACGAGGGCATTACT
1 GTCATTTTACCATACAGGGGTATTACAGCCATTTTACCCTACAAGGGCATTACT
* * * *
71053502 GTCATTTTATCC-TACAGGGGTATTACGGTCATTTTACCCTACAAGGGTATTA-G
1 GTCATTTTA-CCATACAGGGGTATTACAGCCATTTTACCCTACAAGGGCATTACT
71053555 GATCATTTTACC
1 G-TCATTTTACC
71053567 TTTTTTGGGT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
53 3 0.05
54 52 0.91
55 2 0.04
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.35
Consensus pattern (54 bp):
GTCATTTTACCATACAGGGGTATTACAGCCATTTTACCCTACAAGGGCATTACT
Found at i:71064521 original size:22 final size:22
Alignment explanation
Indices: 71064496--71064539 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
71064486 CTCCGAGTTA
*
71064496 CCGCTACCCGAGGTTAGCAGAC
1 CCGCTACCCGAAGTTAGCAGAC
*
71064518 CCGCTACCCGAAGTTGGCAGAC
1 CCGCTACCCGAAGTTAGCAGAC
71064540 TTTGCTTCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.36, G:0.27, T:0.14
Consensus pattern (22 bp):
CCGCTACCCGAAGTTAGCAGAC
Found at i:71069245 original size:39 final size:39
Alignment explanation
Indices: 71069201--71069359 Score: 282
Period size: 39 Copynumber: 4.1 Consensus size: 39
71069191 ATTATATTAT
* *
71069201 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
71069240 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
71069279 CAGCACGAAGCCTGCAGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
71069318 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
71069357 CAG
1 CAG
71069360 TGTCTTGCAT
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 114 1.00
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.20
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:71072728 original size:27 final size:26
Alignment explanation
Indices: 71072672--71072728 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
71072662 CAACCTTAAC
* * *
71072672 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
* *
71072698 CCTAGGGTTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
71072725 CCTA
1 CCTA
71072729 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:71074125 original size:26 final size:26
Alignment explanation
Indices: 71074089--71074141 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
71074079 CACACAAAAA
71074089 AATAAAATAAAAGTAACAATACGCTT
1 AATAAAATAAAAGTAACAATACGCTT
71074115 AATAAAATAAAAGTAACAATACGCTT
1 AATAAAATAAAAGTAACAATACGCTT
71074141 A
1 A
71074142 CCTTGTGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.23
Consensus pattern (26 bp):
AATAAAATAAAAGTAACAATACGCTT
Found at i:71076430 original size:93 final size:93
Alignment explanation
Indices: 71076318--71076489 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
71076308 GCCCATAAGT
* *
71076318 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
71076383 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
71076411 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
71076476 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
71076490 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:71076485 original size:46 final size:46
Alignment explanation
Indices: 71076310--71076485 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
71076300 TGTAACCCGC
* * *
71076310 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
71076356 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
71076406 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
71076449 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
71076486 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:71078912 original size:30 final size:30
Alignment explanation
Indices: 71078868--71078956 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
71078858 CAAAGATAAC
71078868 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
71078897 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
71078927 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
71078957 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:71078916 original size:15 final size:15
Alignment explanation
Indices: 71078868--71078947 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
71078858 CAAAGATAAC
*
71078868 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
71078882 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
71078897 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
71078912 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
71078927 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
71078942 AAGAAA
1 AAGAAA
71078948 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:71078956 original size:15 final size:15
Alignment explanation
Indices: 71078879--71078956 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
71078869 AGAAAACCGA
71078879 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
71078894 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
71078908 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
71078923 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
71078939 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
71078954 ATA
1 ATA
71078957 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:71082013 original size:93 final size:93
Alignment explanation
Indices: 71081901--71082072 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
71081891 GCCCATAAGT
* *
71081901 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
71081966 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
71081994 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
71082059 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
71082073 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:71082068 original size:46 final size:46
Alignment explanation
Indices: 71081893--71082068 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
71081883 TGTAACCCGC
* * *
71081893 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
71081939 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
71081989 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
71082032 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
71082069 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:71090152 original size:48 final size:48
Alignment explanation
Indices: 71090108--71090378 Score: 294
Period size: 48 Copynumber: 5.6 Consensus size: 48
71090098 CTCATATCGG
* * *
71090108 TGCCCATGCCATGGCCCAGACATGGTCTTACACTACCACACATATC-A
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAA
* *
71090155 TAGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCAA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAA
** * *
71090204 CACCGATGCCATGTCCCAGACATTGTCTTACACTAGCACAGATATCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAA
* * * * *
71090252 CT-CCGATGCGATGTCCCAGACATGGTTTTACATTGGCATACATATCAA
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAA
* * * * * *
71090300 CGCCGATGCCATGTCCCAAACATAGTCTTACACTAGCTCTCATCTCGAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC-AA
* * *
71090349 TACCGATGCCAAGTCCTAGACATGGTCTTA
1 TGCCGATGCCATGTCCCAGACATGGTCTTA
71090379 TACAGGATGT
Statistics
Matches: 183, Mismatches: 36, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
47 1 0.01
48 155 0.85
49 27 0.15
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.24
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAA
Found at i:71090213 original size:96 final size:95
Alignment explanation
Indices: 71090113--71090378 Score: 327
Period size: 96 Copynumber: 2.8 Consensus size: 95
71090103 ATCGGTGCCC
* * * *
71090113 ATGCCATGGCCCAGACATGGTCTTACACTACCACACATATCATAGCCGATGCCATGTCCCAAACA
1 ATGCCATGTCCCAGACATAGTCTTACACTAGCACACATATCATA-CCGATGCCATGTCCCAGACA
71090178 TGGTCTTACACTGGCACACATATCAACACCG
65 TGGTCTTACACTGGCACACATATCAACACCG
* * *
71090209 ATGCCATGTCCCAGACATTGTCTTACACTAGCACAGATATCA-ACTCCGATGCGATGTCCCAGAC
1 ATGCCATGTCCCAGACATAGTCTTACACTAGCACACATATCATA--CCGATGCCATGTCCCAGAC
* * * *
71090273 ATGGTTTTACATTGGCATACATATCAACGCCG
64 ATGGTCTTACACTGGCACACATATCAACACCG
* * * * * *
71090305 ATGCCATGTCCCAAACATAGTCTTACACTAGCTCTCATCTCGAATACCGATGCCAAGTCCTAGAC
1 ATGCCATGTCCCAGACATAGTCTTACACTAGCACACATATC--ATACCGATGCCATGTCCCAGAC
71090370 ATGGTCTTA
64 ATGGTCTTA
71090379 TACAGGATGT
Statistics
Matches: 145, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
95 1 0.01
96 118 0.81
97 24 0.17
98 1 0.01
99 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.24
Consensus pattern (95 bp):
ATGCCATGTCCCAGACATAGTCTTACACTAGCACACATATCATACCGATGCCATGTCCCAGACAT
GGTCTTACACTGGCACACATATCAACACCG
Found at i:71090283 original size:144 final size:145
Alignment explanation
Indices: 71090113--71090378 Score: 365
Period size: 144 Copynumber: 1.8 Consensus size: 145
71090103 ATCGGTGCCC
71090113 ATGCCATGGCCCAGACATGGTCTTACACTACCACACATATCATA-GCCGATGCCATGTCCCAAAC
1 ATGCCATGGCCCAGACATGGTCTTACACTACCACACATATCA-ACGCCGATGCCATGTCCCAAAC
* * * *
71090177 ATGGTCTTACACTGGCACACATATC-AACACCGATGCCATGTCCCAGACATTGTCTTACACTAGC
65 ATAGTCTTACACTAGCACACATATCGAACACCGATGCCAAGTCCCAGACATGGTCTTACACTAGC
71090241 ACAGATATCAACTCCG
130 ACAGATATCAACTCCG
* * * * ** *
71090257 ATGCGATGTCCCAGACATGGTTTTACATTGGCATACATATCAACGCCGATGCCATGTCCCAAACA
1 ATGCCATGGCCCAGACATGGTCTTACACTACCACACATATCAACGCCGATGCCATGTCCCAAACA
* * * * *
71090322 TAGTCTTACACTAGCTCTCATCTCGAATACCGATGCCAAGTCCTAGACATGGTCTTA
66 TAGTCTTACACTAGCACACATATCGAACACCGATGCCAAGTCCCAGACATGGTCTTA
71090379 TACAGGATGT
Statistics
Matches: 104, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
143 1 0.01
144 75 0.72
145 28 0.27
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.24
Consensus pattern (145 bp):
ATGCCATGGCCCAGACATGGTCTTACACTACCACACATATCAACGCCGATGCCATGTCCCAAACA
TAGTCTTACACTAGCACACATATCGAACACCGATGCCAAGTCCCAGACATGGTCTTACACTAGCA
CAGATATCAACTCCG
Found at i:71094675 original size:40 final size:38
Alignment explanation
Indices: 71094627--71094751 Score: 119
Period size: 40 Copynumber: 3.2 Consensus size: 38
71094617 CGGACTCAAC
71094627 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGC-CGAAAGCCTTCGGATCTTAGT
* * * * *
71094667 CCGGATTTAGTAACTCGCAGTATGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCCGAAAGCCTTCGGATCTTAGT
*
71094706 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GC-CGAAAGCCTTC-GGATCTTAGT
71094746 CCGGAT
1 CCGGAT
71094752 ATCATTCGAA
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
39 31 0.45
40 34 0.49
41 4 0.06
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.29
Consensus pattern (38 bp):
CCGGATTTAGTACTTGCCGAAAGCCTTCGGATCTTAGT
Found at i:71094681 original size:79 final size:79
Alignment explanation
Indices: 71094567--71094751 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 79
71094557 GCTACACATT
* * *
71094567 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGA-CTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA-GAATGCCGTCGGATCTCAACCCG
*
71094630 GATTTAGT-AGCTT-GCT
63 GATTTAGTCA-CTTAGCA
* * * **
71094646 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCAGTATGCCGTCGGATCTTAGTCCGG
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCAGAATGCCGTCGGATCTCAACCCGG
71094710 ATTTAGTCACTTAGCA
64 ATTTAGTCACTTAGCA
71094726 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
71094752 ATCATTCGAA
Statistics
Matches: 89, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
78 14 0.16
79 63 0.71
80 12 0.13
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (79 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAGAATGCCGTCGGATCTCAACCCGGAT
TTAGTCACTTAGCA
Found at i:71099887 original size:19 final size:19
Alignment explanation
Indices: 71099852--71099889 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
71099842 TTGTAACTTA
*
71099852 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
71099871 AATTTTTCA-TTTATTTTCT
1 AATTTTT-ATTTTATTTTCT
71099890 TCTAATAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:71100425 original size:21 final size:21
Alignment explanation
Indices: 71100395--71100437 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
71100385 ACAGTGGTTG
*
71100395 AACTCGTTGCCACGAAGTTCA
1 AACTCATTGCCACGAAGTTCA
71100416 AACTCATTGCCACGAAGTTCA
1 AACTCATTGCCACGAAGTTCA
71100437 A
1 A
71100438 TCACTACTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (21 bp):
AACTCATTGCCACGAAGTTCA
Found at i:71103768 original size:27 final size:27
Alignment explanation
Indices: 71103572--71103796 Score: 281
Period size: 27 Copynumber: 8.3 Consensus size: 27
71103562 CGAGGTTATC
71103572 TCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
71103599 TCAGTATTTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
71103626 TCGATAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
71103653 TCAGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
71103680 TCGATAATTCTACCTTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
71103707 TCAGTAATTCTATCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
71103734 TCGATAATTCTACCTTATAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * **
71103761 TTGGTAATTTTA-CAAACCAGGGGTATT
1 TCGGTAATTCTACCCTA-CAGGGGTATT
*
71103788 TTGGTAATT
1 TCGGTAATT
71103797 TTGCTAATAG
Statistics
Matches: 170, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 2 0.01
27 168 0.99
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
TCGGTAATTCTACCCTACAGGGGTATT
Found at i:71103788 original size:54 final size:54
Alignment explanation
Indices: 71103576--71103761 Score: 318
Period size: 54 Copynumber: 3.4 Consensus size: 54
71103566 GTTATCTCGG
* * *
71103576 TAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGA
*
71103630 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGA
*
71103684 TAATTCTACCTTACAGGGGTATTTCAGTAATTCTATCCTACAGGGGTATTTCGA
1 TAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGA
*
71103738 TAATTCTACCTTATAGGGGTATTT
1 TAATTCTACCTTACAGGGGTATTT
71103762 TGGTAATTTT
Statistics
Matches: 127, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 127 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (54 bp):
TAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGA
Found at i:71103797 original size:27 final size:26
Alignment explanation
Indices: 71103752--71103851 Score: 128
Period size: 27 Copynumber: 3.7 Consensus size: 26
71103742 TCTACCTTAT
* *
71103752 AGGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTGCTAA-C
*
71103779 AGGGGTATTTTGGTAATTTTGCTAAT
1 AGGGGTATTTTGGTAATTTTGCTAAC
71103805 AGAGGGTATTTTGGTAATTTTGCTAATC
1 AG-GGGTATTTTGGTAATTTTGCTAA-C
* *
71103833 AAGGGTATTTGGGTAATTT
1 AGGGGTATTTTGGTAATTT
71103852 GGTAAACTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 2 0.03
27 62 0.95
28 1 0.02
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.42
Consensus pattern (26 bp):
AGGGGTATTTTGGTAATTTTGCTAAC
Found at i:71103812 original size:54 final size:53
Alignment explanation
Indices: 71103750--71103851 Score: 150
Period size: 54 Copynumber: 1.9 Consensus size: 53
71103740 ATTCTACCTT
* *
71103750 ATAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGCTA
1 ATAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTGGGTAATTTTGCTA
* * *
71103803 ATAGAGGGTATTTTGGTAATTTTGCTAATCAAGGGTATTTGGGTAATTT
1 ATAG-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTGGGTAATTT
71103852 GGTAAACTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
53 4 0.09
54 39 0.91
ACGTcount: A:0.26, C:0.06, G:0.25, T:0.42
Consensus pattern (53 bp):
ATAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTGGGTAATTTTGCTA
Found at i:71106653 original size:39 final size:39
Alignment explanation
Indices: 71106519--71106660 Score: 153
Period size: 40 Copynumber: 3.6 Consensus size: 39
71106509 TCGAATGATG
* * *
71106519 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-AAGTTACTAAA
* * * * *
71106559 TCCGGACTAGGAT-CCGAAGCCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATT-GTGCAAGTTACTAAA
71106599 TCCGGGCTAAG-CCCGAAGGCATTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCAAGTTACTAAA
* *
71106637 CCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
71106661 CGTACGAGTC
Statistics
Matches: 83, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
38 22 0.27
39 22 0.27
40 34 0.41
41 5 0.06
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCAAGTTACTAAA
Found at i:71106669 original size:78 final size:80
Alignment explanation
Indices: 71106519--71106700 Score: 194
Period size: 78 Copynumber: 2.3 Consensus size: 80
71106509 TCGAATGATG
* * * *
71106519 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGCCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGCCATTC
*
71106584 GTGCGAGTTAATAAA
66 GTACGAGTTAATAAA
* ** *
71106599 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGCCATT
*
71106661 CGTACGAGTCGTTAT-AA
65 CGTACGAGT--TAATAAA
**
71106678 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
71106701 TGAGCGAGTC
Statistics
Matches: 86, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
77 1 0.01
78 42 0.49
79 29 0.34
80 14 0.16
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGCCATTC
GTACGAGTTAATAAA
Found at i:71112552 original size:43 final size:43
Alignment explanation
Indices: 71112449--71112552 Score: 122
Period size: 42 Copynumber: 2.4 Consensus size: 43
71112439 GTCCCAAATG
* *
71112449 TGGTCTTACATGTAACCAAATATCGATGCCACTATCCTAGACA
1 TGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACA
* * * *
71112492 GGGTCTTACACGAAATCAAATAT-GATGCCGA-TGTCCCAGACA
1 TGGTCTTACATGTAATCAAATATCGATGCC-ACTATCCCAGACA
71112534 TGGTCTTACATGTGAATCA
1 TGGTCTTACATGT-AATCA
71112553 TAAGTCGATT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
42 25 0.50
43 25 0.50
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (43 bp):
TGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACA
Found at i:71116017 original size:28 final size:27
Alignment explanation
Indices: 71115954--71116023 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
71115944 ATAGTGAGTC
*
71115954 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
71115981 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
71116009 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71116024 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:71123945 original size:28 final size:27
Alignment explanation
Indices: 71123882--71123951 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
71123872 ATAGTGAGTC
*
71123882 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
71123909 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
71123937 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71123952 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:71132912 original size:28 final size:28
Alignment explanation
Indices: 71132843--71132943 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
71132833 GACAAGATTG
* * * *
71132843 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
71132873 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
71132901 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
71132930 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
71132944 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:71136407 original size:80 final size:80
Alignment explanation
Indices: 71136323--71136471 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
71136313 TATGGTAACC
* * * *
71136323 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
71136387 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
71136403 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
71136468 CCGG
66 CCGG
71136472 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:71136413 original size:40 final size:38
Alignment explanation
Indices: 71136364--71136471 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
71136354 ATCACGATTT
*
71136364 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
71136404 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
71136444 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
71136472 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:71138602 original size:30 final size:30
Alignment explanation
Indices: 71138566--71138623 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
71138556 CCTTAAATCT
*
71138566 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTGCAAAATTACAATTTTGCCCCTA
* * *
71138596 AACTTTTGCATATTTACACTTTTGCCCC
1 AACTTTTGCAAAATTACAATTTTGCCCC
71138624 AAAGCTCGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.05, T:0.41
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTGCCCCTA
Found at i:71140177 original size:27 final size:26
Alignment explanation
Indices: 71140129--71140188 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
71140119 ACGAGGCTGC
*
71140129 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
71140156 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
71140182 CAGATAT
1 CAGATAT
71140189 ATATATGTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:71143074 original size:27 final size:26
Alignment explanation
Indices: 71143029--71143111 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 26
71143019 GTGTACCTTG
*
71143029 ACCCTTAATCGGGTAAAATGACCGAAAT
1 ACCCTT-ATAGGGT-AAATGACCGAAAT
*
71143057 ACCCTTATAGGGTGAAATGACTGAAAT
1 ACCCTTATAGGGT-AAATGACCGAAAT
**
71143084 ACCCCCATAGGGTAAATTGACCGAAAT
1 ACCCTTATAGGGTAAA-TGACCGAAAT
71143111 A
1 A
71143112 TTTCTATAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 3 0.06
27 39 0.81
28 6 0.12
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (26 bp):
ACCCTTATAGGGTAAATGACCGAAAT
Found at i:71147021 original size:45 final size:45
Alignment explanation
Indices: 71146957--71147137 Score: 290
Period size: 45 Copynumber: 4.0 Consensus size: 45
71146947 TATCGTACAG
* *
71146957 TACTATTCGGGCCTTTGAGCCTAGTAGGCTATGATGCAGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCTGGTGAAA
71147002 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCTGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCTGGTGAAA
* *
71147047 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCTGGTGAAA
* * * *
71147092 TACTATTCGGGCCTTCGAGTCTAGTAGGCTATAATGCTGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCTGGTGAAA
71147137 T
1 T
71147138 GATATCGAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 126 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCTGGTGAAA
Found at i:71149910 original size:29 final size:29
Alignment explanation
Indices: 71149878--71150009 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
71149868 ATAGTGAATC
71149878 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
71149907 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
71149937 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
71149966 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
71149995 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71150010 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:71150019 original size:59 final size:59
Alignment explanation
Indices: 71149878--71150009 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
71149868 ATAGTGAATC
71149878 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
71149937 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
71149995 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71150010 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:71157475 original size:29 final size:29
Alignment explanation
Indices: 71157443--71157574 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
71157433 ATAGTGAATC
71157443 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
71157472 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
71157502 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
71157531 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
71157560 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71157575 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:71157584 original size:59 final size:59
Alignment explanation
Indices: 71157443--71157574 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
71157433 ATAGTGAATC
71157443 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
71157502 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
71157560 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71157575 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:71162101 original size:20 final size:20
Alignment explanation
Indices: 71162085--71162130 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
71162075 AAGGGGCTCG
*
71162085 ATGGGCCAAAATTGGGCCCA
1 ATGGGCCAAAACTGGGCCCA
71162105 ATGGGCCAAAACTGGGCCCA
1 ATGGGCCAAAACTGGGCCCA
71162125 ATGGGC
1 ATGGGC
71162131 TTACGGACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.26, G:0.33, T:0.13
Consensus pattern (20 bp):
ATGGGCCAAAACTGGGCCCA
Found at i:71164646 original size:28 final size:27
Alignment explanation
Indices: 71164583--71164652 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
71164573 ATAGTGAGTC
*
71164583 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
71164610 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
71164638 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
71164653 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:71168504 original size:40 final size:40
Alignment explanation
Indices: 71168449--71168615 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
71168439 AATGATACCT
* *
71168449 GGGCTAAGTCCCGAAGGCATTTATGCTAGTGATCATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCTAGTGATCATATCC
* * *
71168489 GGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATCATATCC
* * * *
71168529 GGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCTAGTGATCATATCC
* * * *
71168569 GGGTTAAGACCCGAAGGCAATTGTGCTTGTGGATTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCTAGT-GATCATATCC
71168610 -GGCTAA
1 GGGCTAA
71168616 ATTCTGAAGA
Statistics
Matches: 104, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.01
40 95 0.91
41 8 0.08
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGACCCGAAGGCATTTGTGCTAGTGATCATATCC
Found at i:71168614 original size:80 final size:80
Alignment explanation
Indices: 71168449--71168615 Score: 212
Period size: 80 Copynumber: 2.1 Consensus size: 80
71168439 AATGATACCT
* * * *
71168449 GGGCTAAGTCCCGAAGGCATTTATGCTAGTGATCATATCCGGGCTAAGACCCGAAGGCATTCGTG
1 GGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCATTCGTG
*
71168514 CGAGTTGTTATATCC
66 CGAGTGGTTATATCC
* * *
71168529 GGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT-GT
1 GGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGC-ATTCGT
**
71168593 GCTTGTGGATTATATCC
65 GCGAGTGG-TTATATCC
71168610 -GGCTAA
1 GGGCTAA
71168616 ATTCTGAAGA
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
80 64 0.85
81 11 0.15
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
GGGCTAAGACCCGAAGGCATTTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCATTCGTG
CGAGTGGTTATATCC
Found at i:71170676 original size:39 final size:39
Alignment explanation
Indices: 71170594--71170744 Score: 225
Period size: 38 Copynumber: 3.9 Consensus size: 39
71170584 GAATGTTCGA
*
71170594 GTGATATCCGGGCTAAGCCCGAAGGC-ATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
71170632 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
71170671 ATGATATCC-GGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* * *
71170709 GTGATATCCGGGTTAAGTCCCGAAGACATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
71170745 GGTTACCATA
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
38 62 0.61
39 24 0.24
40 16 0.16
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:71170703 original size:77 final size:78
Alignment explanation
Indices: 71170595--71170744 Score: 241
Period size: 77 Copynumber: 1.9 Consensus size: 78
71170585 AATGTTCGAG
*
71170595 TGATATCCGGGCTAAGCCCGAAGGCATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGACA
71170659 ATTGTGCGAGCTA
66 ATTGTGCGAGCTA
* *
71170672 TGATATCC-GGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGAC
1 TGATATCCGGGCTAAGCCCGAAGGC-ATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGAC
*
71170736 ATTTGTGCG
65 AATTGTGCG
71170745 GGTTACCATA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
76 16 0.24
77 35 0.52
78 16 0.24
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.24
Consensus pattern (78 bp):
TGATATCCGGGCTAAGCCCGAAGGCATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGACA
ATTGTGCGAGCTA
Found at i:71173358 original size:18 final size:20
Alignment explanation
Indices: 71173335--71173375 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
71173325 AAAAAGGGTA
71173335 TTTTCGAA-AATGGT-AAGT
1 TTTTCGAAGAATGGTCAAGT
*
71173353 TTTTCGAAGAATGTTCAAGT
1 TTTTCGAAGAATGGTCAAGT
71173373 TTT
1 TTT
71173376 GTTAAACGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (20 bp):
TTTTCGAAGAATGGTCAAGT
Found at i:71183183 original size:93 final size:93
Alignment explanation
Indices: 71183054--71183225 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
71183044 CGCCCATAAG
* * *
71183054 CGAACTCCGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
71183119 ACGAGTTTGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
71183147 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71183212 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
71183226 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:71183222 original size:46 final size:46
Alignment explanation
Indices: 71183047--71183222 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
71183037 TGTAACCCGC
* * * * *
71183047 CCATAAGCGAACTCCGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
71183093 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
71183143 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
71183186 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
71183223 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:71183241 original size:46 final size:44
Alignment explanation
Indices: 71183098--71183241 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
71183088 CGCATCCATA
*
71183098 AGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
71183145 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
71183191 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
71183237 AGTGA
1 AGTGA
71183242 CATGTCACTT
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.42
47 30 0.38
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:71190336 original size:93 final size:93
Alignment explanation
Indices: 71190224--71190395 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
71190214 CGCCCATAAG
* *
71190224 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71190289 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
71190317 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71190382 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
71190396 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:71190392 original size:46 final size:46
Alignment explanation
Indices: 71190217--71190392 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
71190207 TGTAACCCGC
* * *
71190217 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
71190263 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
71190313 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
71190356 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
71190393 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:71192703 original size:49 final size:49
Alignment explanation
Indices: 71192626--71192870 Score: 310
Period size: 49 Copynumber: 4.9 Consensus size: 49
71192616 TAGCCGAAGC
* * *
71192626 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
71192675 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * *
71192725 CATCTGATACACGTAGTAGCCTGCAGTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * * *
71192776 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGAACAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
*
71192825 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
71192871 TCACAATAGC
Statistics
Matches: 165, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
49 82 0.50
50 46 0.28
51 37 0.22
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:71197977 original size:49 final size:49
Alignment explanation
Indices: 71197900--71198144 Score: 301
Period size: 49 Copynumber: 4.9 Consensus size: 49
71197890 TAGCCGAAGC
* * *
71197900 TATCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGCGACCAAT
* * *
71197949 TATCCGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGCGACC-AAT
* * * * *
71197999 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGCGA-CCAA-T
* * * * *
71198050 TATCAGGTACGCATAGTATCTTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGCGACCAAT
* *
71198099 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGCGACC
71198145 TCACAATAGC
Statistics
Matches: 164, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 81 0.49
50 47 0.29
51 36 0.22
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGCGACCAAT
Found at i:71198135 original size:100 final size:99
Alignment explanation
Indices: 71197899--71198144 Score: 332
Period size: 100 Copynumber: 2.5 Consensus size: 99
71197889 GTAGCCGAAG
* * * * * * *
71197899 CTATCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATA
*
71197964 GTAGCTTGCACTTAGTACTACACACGTGACCTAA
66 GTAGCTTGCACTTAGTACTACACACGCGACCTAA
* * * *
71197998 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACA
* *
71198063 TAGTATCTTGCACTTAGTACTACACATGCGACC-AA
64 TAGTAGCTTGCACTTAGTACTACACACGCGACCTAA
*
71198098 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
71198145 TCACAATAGC
Statistics
Matches: 127, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
99 39 0.31
100 47 0.37
101 41 0.32
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (99 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATA
GTAGCTTGCACTTAGTACTACACACGCGACCTAA
Found at i:71204104 original size:45 final size:45
Alignment explanation
Indices: 71204040--71204203 Score: 217
Period size: 45 Copynumber: 3.7 Consensus size: 45
71204030 TATCATACAG
** * * *
71204040 TACTATTTTGGCCTTTGAGCCTAGCAGACTATGATGCCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATGATGCTGGTGAAA
* *
71204085 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCTGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATGATGCTGGTGAAA
* *
71204130 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATACTGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATGATGCTGGTGAAA
71204175 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGCTA
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGCTA
71204204 AATGCCAATG
Statistics
Matches: 109, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
43 19 0.17
44 5 0.05
45 84 0.77
46 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATGATGCTGGTGAAA
Found at i:71205024 original size:34 final size:35
Alignment explanation
Indices: 71204961--71205041 Score: 119
Period size: 34 Copynumber: 2.3 Consensus size: 35
71204951 TATTGAGGTG
71204961 GGCTTAGGCCCAGACTGTTTACTGATACTAAAATA
1 GGCTTAGGCCCAGACTGTTTACTGATACTAAAATA
* * * *
71204996 GGCTAAGGCCCAGACTG-TTACTGTTACTAATATG
1 GGCTTAGGCCCAGACTGTTTACTGATACTAAAATA
71205030 GGCTTAGGCCCA
1 GGCTTAGGCCCA
71205042 TAATGTATTC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 25 0.61
35 16 0.39
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (35 bp):
GGCTTAGGCCCAGACTGTTTACTGATACTAAAATA
Found at i:71208194 original size:119 final size:120
Alignment explanation
Indices: 71208012--71208234 Score: 310
Period size: 119 Copynumber: 1.9 Consensus size: 120
71208002 TACTCATTCA
* *
71208012 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCGCAAATGCCTTCGAGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAT
* *
71208077 TTAGTGACTT-GCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTCACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
71208132 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTCG-GATGTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
*
71208194 ATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
71208235 CATCATTCGA
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
118 3 0.03
119 69 0.76
120 19 0.21
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAT
ATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:71208234 original size:40 final size:40
Alignment explanation
Indices: 71208010--71208234 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
71208000 GGTACTCATT
* * *
71208010 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * * *
71208050 CAAATGCCTTCGAGACTTAACCCGGATTTAGTGACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
71208090 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
71208130 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
71208169 CAAATGCCTTC-GGATGTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
71208210 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
71208235 CATCATTCGA
Statistics
Matches: 158, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 112 0.71
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:71213702 original size:46 final size:46
Alignment explanation
Indices: 71213651--71213832 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
71213641 CAAGTTAAAT
71213651 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
71213697 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
71213743 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
71213789 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
71213833 AGATGTATAT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:71213896 original size:47 final size:47
Alignment explanation
Indices: 71213836--71213946 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
71213826 ATGTATGAGA
* * * *
71213836 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
71213883 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
71213930 TGTATA-AATGTGATAAG
1 TGTATATAA-GTGATAAG
71213947 TCCCGAGGGG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:71216556 original size:40 final size:40
Alignment explanation
Indices: 71216501--71217020 Score: 842
Period size: 40 Copynumber: 13.0 Consensus size: 40
71216491 CTCGACGATG
* * **
71216501 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
* * * **
71216541 ATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATAT
1 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
* **
71216581 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
* *
71216621 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGACGT
1 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
71216661 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
1 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
71216701 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
1 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
71216741 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
1 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
71216781 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
1 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
71216821 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
1 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
71216861 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
1 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
*
71216901 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
*
71216941 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
* * * * * *
71216981 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGACGT
1 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
71217021 GTATTCGGGC
Statistics
Matches: 464, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 464 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACGT
Found at i:71217732 original size:40 final size:40
Alignment explanation
Indices: 71217664--71217803 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
71217654 TTCAAATGGT
* ** *
71217664 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTACTAA
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTAA
* *
71217704 ATCCGGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATA
1 ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTA-A
* * * * *
71217745 A-CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTAT
1 ATCCGGGCTAAT-TCCCGAAGGCAATTGTGCGAGTCACTAA
* *
71217784 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGCTAATTCCCGAAGG
71217804 TACGTGATTC
Statistics
Matches: 80, Mismatches: 16, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
39 14 0.17
40 64 0.80
41 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAATTCCCGAAGGCAATTGTGCGAGTCACTAA
Found at i:71220517 original size:48 final size:46
Alignment explanation
Indices: 71220466--71220601 Score: 254
Period size: 46 Copynumber: 3.0 Consensus size: 46
71220456 AGTTAAATAT
71220466 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
71220512 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
71220558 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
71220602 AGATGTATAT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 88 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:71220659 original size:47 final size:47
Alignment explanation
Indices: 71220605--71220715 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
71220595 ATGTATGAGA
* * *
71220605 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
71220652 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
71220699 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
71220716 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:71228688 original size:40 final size:39
Alignment explanation
Indices: 71228643--71228849 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
71228633 CGGAATACAA
*
71228643 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
71228683 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
71228723 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
71228763 CCGGATGTGGTCACTAGCAC-AATGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
71228802 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
71228842 CCGGATAT
1 CCGGATAT
71228850 CATTCAATTG
Statistics
Matches: 141, Mismatches: 24, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
39 34 0.24
40 107 0.76
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:71228783 original size:80 final size:79
Alignment explanation
Indices: 71228643--71228848 Score: 243
Period size: 79 Copynumber: 2.6 Consensus size: 79
71228633 CGGAATACAA
* * *
71228643 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
71228708 CCTTCGGGTATTAGC
65 CCTTCGGGTATTAAC
* * **
71228723 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
71228787 CCTTCGGGTCTTAAC
65 CCTTCGGGTATTAAC
** * ** * *
71228802 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
71228849 TCATTCAATT
Statistics
Matches: 107, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
79 55 0.51
80 50 0.47
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (79 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGC
CTTCGGGTATTAAC
Found at i:71230577 original size:40 final size:40
Alignment explanation
Indices: 71230522--71230696 Score: 194
Period size: 40 Copynumber: 4.4 Consensus size: 40
71230512 GGCTGTCATA
* *
71230522 TTCGGGACTTAACCCGGATTTAGTGACTTGCACAAATGCC
1 TTCGGGACTTAGCCCGGATTTAGTAACTTGCACAAATGCC
* * *
71230562 TTCGGGACTTAACCCGGATTTAGTAACTAGCACCAATGCC
1 TTCGGGACTTAGCCCGGATTTAGTAACTTGCACAAATGCC
* * * * *
71230602 TTCGGG-CTCAGCCCAGAATTAGTAACTCGAACAAATGCC
1 TTCGGGACTTAGCCCGGATTTAGTAACTTGCACAAATGCC
* * *
71230641 TTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCC
1 TTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCACAAATGCC
71230681 TTCGGGACTTAGCCCG
1 TTCGGGACTTAGCCCG
71230697 AACATCATTC
Statistics
Matches: 112, Mismatches: 19, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
38 2 0.02
39 29 0.26
40 72 0.64
41 9 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCGGGACTTAGCCCGGATTTAGTAACTTGCACAAATGCC
Found at i:71233895 original size:80 final size:80
Alignment explanation
Indices: 71233811--71233959 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
71233801 TATGGTAACC
* * * *
71233811 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
71233875 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
71233891 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
71233956 CCGG
66 CCGG
71233960 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:71233901 original size:40 final size:38
Alignment explanation
Indices: 71233852--71233959 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
71233842 ATCACGATTT
*
71233852 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
71233892 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
71233932 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
71233960 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:71237558 original size:40 final size:39
Alignment explanation
Indices: 71237331--71237551 Score: 274
Period size: 38 Copynumber: 5.7 Consensus size: 39
71237321 TCGAATGATG
* *
71237331 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
*
71237371 TCCGGACT-AGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
71237409 TCCGGACTAAGAT--CGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
71237447 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
* *
71237486 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
71237526 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
71237552 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 10, Indels: 16
0.86 0.05 0.08
Matches are distributed among these distances:
38 67 0.41
39 34 0.21
40 62 0.38
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:71246408 original size:23 final size:23
Alignment explanation
Indices: 71246382--71246529 Score: 176
Period size: 22 Copynumber: 6.5 Consensus size: 23
71246372 ATAGCTCGTA
*
71246382 AGAGCTTACTATTTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCATT
*
71246405 AGAGCTTACTGTTTTAGCTCATT
1 AGAGCTTACTGTTTCAGCTCATT
*
71246428 AGAGCTTACTG-TTCAGCTCAAT
1 AGAGCTTACTGTTTCAGCTCATT
71246450 AGAGCTTACTG-TTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCATT
* * *
71246472 GGAGCTTACCGTTT-AGCTCAAT
1 AGAGCTTACTGTTTCAGCTCATT
* * *
71246494 AGTGCTTACTGTTATCAACTCATGA
1 AGAGCTTACTGTT-TCAGCTCAT-T
71246519 AGAGCTTACTG
1 AGAGCTTACTG
71246530 ACCATGACTC
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
22 56 0.53
23 35 0.33
24 5 0.05
25 10 0.09
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCATT
Found at i:71249827 original size:40 final size:39
Alignment explanation
Indices: 71249782--71249911 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 39
71249772 CGGAATATAA
71249782 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
71249822 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * *
71249862 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
71249902 CCGGATATAA
1 CCGGATATAA
71249912 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
38 1 0.01
40 71 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:71249926 original size:40 final size:40
Alignment explanation
Indices: 71249798--71249948 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
71249788 ATAACCATGT
* * *
71249798 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
** * *
71249838 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
71249878 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
71249918 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
71249949 CATTCAATTT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 15 0.16
40 76 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:71249932 original size:80 final size:79
Alignment explanation
Indices: 71249798--71249948 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 79
71249788 ATAACCATGT
*
71249798 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
71249863 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * * * *
71249878 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
71249941 CCGGATAT
64 CCGGATAT
71249949 CATTCAATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 17 0.27
80 46 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:71257832 original size:40 final size:39
Alignment explanation
Indices: 71257787--71257916 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 39
71257777 CGGAACATAA
71257787 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
71257827 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * *
71257867 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
71257907 CCGGATATAA
1 CCGGATATAA
71257917 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
38 1 0.01
40 71 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:71257931 original size:40 final size:40
Alignment explanation
Indices: 71257803--71257953 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
71257793 ATAACCATGT
* * *
71257803 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
** * *
71257843 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
71257883 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
71257923 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
71257954 CATTCAATTT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 15 0.16
40 76 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:71257937 original size:80 final size:79
Alignment explanation
Indices: 71257803--71257953 Score: 207
Period size: 80 Copynumber: 1.9 Consensus size: 79
71257793 ATAACCATGT
*
71257803 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
71257868 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * * * *
71257883 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
71257946 CCGGATAT
64 CCGGATAT
71257954 CATTCAATTT
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 17 0.27
80 46 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:71259794 original size:40 final size:40
Alignment explanation
Indices: 71259739--71259948 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
71259729 AACATTGGAA
71259739 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
71259779 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
71259819 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
71259859 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
71259898 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
71259939 CTATATCCGG
1 ATATATCCGG
71259949 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:71267927 original size:40 final size:40
Alignment explanation
Indices: 71267872--71268081 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
71267862 AACATTGGAA
71267872 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
71267912 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
71267952 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
71267992 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
71268031 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
71268072 CTATATCCGG
1 ATATATCCGG
71268082 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:71276063 original size:40 final size:40
Alignment explanation
Indices: 71276008--71276217 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
71275998 AACATTGGAA
71276008 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
71276048 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
71276088 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
71276128 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
71276167 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
71276208 CTATATCCGG
1 ATATATCCGG
71276218 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:71284199 original size:40 final size:40
Alignment explanation
Indices: 71284144--71284353 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
71284134 AACATTGGAA
71284144 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
71284184 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
71284224 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
71284264 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
71284303 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
71284344 CTATATCCGG
1 ATATATCCGG
71284354 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:71294430 original size:29 final size:29
Alignment explanation
Indices: 71294386--71294458 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
71294376 GTGACAAGAT
*
71294386 TGGCACTAAGTATGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
71294415 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
1 TGGCACTAAGTGTGCAAGCTTGAAAAGTA
71294444 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
71294459 GAATTTAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAAAGTA
Found at i:71294477 original size:29 final size:29
Alignment explanation
Indices: 71294445--71294517 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
71294435 TGAAAAGTAT
* * *
71294445 GGCACTAAGTGTGCGAATTTAAATTATAC
1 GGCACTAAGTGTGCGAACTTAAATCACAC
* * *
71294474 GGCACTATGTGTGCGAGCTTAAATCACAT
1 GGCACTAAGTGTGCGAACTTAAATCACAC
71294503 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
71294518 TGATCGATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAACTTAAATCACAC
Found at i:71300689 original size:29 final size:27
Alignment explanation
Indices: 71300655--71300757 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
71300645 TACTCAATCA
*
71300655 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
71300684 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
71300713 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
71300742 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
71300758 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:71308717 original size:29 final size:27
Alignment explanation
Indices: 71308683--71308785 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
71308673 TACTCAATCA
*
71308683 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
71308712 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
71308741 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
71308770 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
71308786 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:71312752 original size:27 final size:27
Alignment explanation
Indices: 71312698--71312808 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
71312688 AGCATGGCTG
* *
71312698 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
71312724 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
71312751 CCACAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
71312778 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
71312805 CCAG
1 CCAG
71312809 GATGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.20
27 59 0.79
28 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:71314317 original size:24 final size:24
Alignment explanation
Indices: 71314241--71314304 Score: 119
Period size: 24 Copynumber: 2.7 Consensus size: 24
71314231 CCAACACCGT
*
71314241 TCTCCCTAATCAGCTCTTAAATCC
1 TCTCCCTTATCAGCTCTTAAATCC
71314265 TCTCCCTTATCAGCTCTTAAATCC
1 TCTCCCTTATCAGCTCTTAAATCC
71314289 TCTCCCTTATCAGCTC
1 TCTCCCTTATCAGCTC
71314305 CCAAATCTTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.20, C:0.39, G:0.05, T:0.36
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCTTAAATCC
Found at i:71318172 original size:15 final size:16
Alignment explanation
Indices: 71318140--71318172 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
71318130 AGAAATGTGT
71318140 ATTAATTCATAATTTA
1 ATTAATTCATAATTTA
*
71318156 ATTAATT-ATATTTTA
1 ATTAATTCATAATTTA
71318171 AT
1 AT
71318173 CCCCATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTAATTCATAATTTA
Found at i:71327765 original size:40 final size:40
Alignment explanation
Indices: 71327703--71327872 Score: 186
Period size: 40 Copynumber: 4.2 Consensus size: 40
71327693 TCTTCGGACA
* * *
71327703 TAGCCCGG-TTATAGTGATTCGCACAATTGCCTTCGGGAAT
1 TAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGAAT
*
71327743 TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACT
1 TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAAT
* *
71327783 TAACCC-GATTTTGGTAACTCGCACAAATGCCTTCGGGAAT
1 TAGCCCGGA-TTTAGTAACTCGCACAAATGCCTTCGGGAAT
* * * *
71327823 T-GACCCGGATTTAGTCACTTAGCACAAAAGCCTTC-GGACT
1 TAG-CCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGAAT
71327863 TAGCCCGGAT
1 TAGCCCGGAT
71327873 ACCATTCGAA
Statistics
Matches: 111, Mismatches: 13, Indels: 12
0.82 0.10 0.09
Matches are distributed among these distances:
39 2 0.02
40 90 0.81
41 19 0.17
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAAT
Found at i:71327822 original size:80 final size:80
Alignment explanation
Indices: 71327721--71327869 Score: 221
Period size: 80 Copynumber: 1.9 Consensus size: 80
71327711 TTATAGTGAT
* * *
71327721 TCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTT
1 TCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAGTAACTTAGCACAAAAGCCTTC-GGACTT
71327784 AACCCGATTTTGGTAAC
64 AACCCGATTTTGGTAAC
* *
71327801 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGACTTAG
1 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGACTTAA
71327866 CCCG
66 CCCG
71327870 GATACCATTC
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
80 47 0.76
81 15 0.24
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAAAGCCTTCGGACTTAA
CCCGATTTTGGTAAC
Found at i:71340131 original size:66 final size:68
Alignment explanation
Indices: 71340055--71340241 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
71340045 TAGTACCACT
*
71340055 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
71340117 CACG
65 CACG
71340121 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
71340186 ATCACG
63 ATCACG
71340192 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
71340242 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:71340166 original size:71 final size:71
Alignment explanation
Indices: 71340078--71340241 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
71340068 CGATTTGTCT
71340078 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
71340143 CTTTCA
66 CTTTCA
71340149 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
71340214 CTTTCA
66 CTTTCA
71340220 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
71340242 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:71340279 original size:71 final size:70
Alignment explanation
Indices: 71340078--71340275 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
71340068 CGATTTGTCT
* * *
71340078 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
71340143 CTTTCA
65 CTTTCA
* * *
71340149 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
71340214 CTTTCA
65 CTTTCA
* *
71340220 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
71340276 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:71344998 original size:40 final size:39
Alignment explanation
Indices: 71344954--71345131 Score: 173
Period size: 40 Copynumber: 4.5 Consensus size: 39
71344944 GCTCGATTGT
* * * *
71344954 CTTCGGGACATAGCCCAGTTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
71344994 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
71345034 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * *
71345074 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAA-GC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
71345114 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
71345132 ATACCATTCG
Statistics
Matches: 115, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 2 0.02
40 101 0.88
41 12 0.10
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:71345066 original size:80 final size:80
Alignment explanation
Indices: 71344982--71345131 Score: 232
Period size: 80 Copynumber: 1.9 Consensus size: 80
71344972 TTATAGTGAT
* *
71344982 TCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTT
1 TCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAGTAACTTAGCACAAA-GCCTTCGGGACTT
71345045 AACCCGGTTTTGGTAAC
64 AACCCGGTTTTGGTAAC
* *
71345062 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAGCCTTCGGGACTTAG
1 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAAGCCTTCGGGACTTAA
71345127 CCCGG
66 CCCGG
71345132 ATACCATTCG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
80 55 0.86
81 9 0.14
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
TCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTAACTTAGCACAAAGCCTTCGGGACTTAA
CCCGGTTTTGGTAAC
Found at i:71345132 original size:40 final size:40
Alignment explanation
Indices: 71344982--71345133 Score: 200
Period size: 40 Copynumber: 3.8 Consensus size: 40
71344972 TTATAGTGAT
*
71344982 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAAC
* * * *
71345022 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAAC
*
71345062 TCGCACAAATGCCTTCGGGAATT-GACCCGGATTTAGTCAC
1 TCGCACAAATGCCTTCGGGAATTAG-CCCGGATTTAGTAAC
* *
71345102 TTAGCACAAA-GCCTTCGGGACTTAGCCCGGAT
1 -TCGCACAAATGCCTTCGGGAATTAGCCCGGAT
71345134 ACCATTCGAA
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
40 88 0.91
41 9 0.09
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGAATTAGCCCGGATTTAGTAAC
Found at i:71347547 original size:27 final size:27
Alignment explanation
Indices: 71347517--71347794 Score: 299
Period size: 27 Copynumber: 10.3 Consensus size: 27
71347507 TTTGTTTACC
*
71347517 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
71347544 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
71347571 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
71347598 AAATTAGCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
71347625 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
71347652 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
71347679 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** **
71347706 AAATTACTGAAATA-CCCTGGACCTGTA
1 AAATTACCAAAATACCCCTGG-TTTGTA
** * **
71347733 AAATTATTAAAA-AACCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* * *
71347760 AAATTACCAAAGTACCCCTGATTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
71347787 GAATTACC
1 AAATTACC
71347795 GTTTTACTCT
Statistics
Matches: 213, Mismatches: 34, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
26 6 0.03
27 201 0.94
28 6 0.03
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:71347848 original size:27 final size:27
Alignment explanation
Indices: 71347818--71348021 Score: 284
Period size: 27 Copynumber: 7.6 Consensus size: 27
71347808 TATACAAAAT
71347818 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
71347845 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
71347872 TACCGAAATACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* *
71347899 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
** * * *
71347926 TACTAAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
71347953 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * *
71347980 TACTGAAATAACCC-TGTAGGTTAGAAT
1 TACCGAAAT-ACCCTTGTAGGGTAGAAA
*
71348007 TACCGAGATACCCTT
1 TACCGAAATACCCTT
71348022 TTATGGTAAA
Statistics
Matches: 160, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
26 4 0.03
27 152 0.95
28 4 0.03
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
TACCGAAATACCCTTGTAGGGTAGAAA
Done.