Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 192 of 205
Found at i:56985425 original size:21 final size:21
Alignment explanation
Indices: 56985366--56985431 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
56985356 CAGCAGCTTA
* * *
56985366 AAGTAGATGCGGCAGCGAGAG
1 AAGTAGAGGCTGCAGCGAGGG
**
56985387 AAGTAGAGGCTAAAGCGAGGG
1 AAGTAGAGGCTGCAGCGAGGG
*
56985408 AAGTAGAGGCTGCGGCGAGGG
1 AAGTAGAGGCTGCAGCGAGGG
56985429 AAG
1 AAG
56985432 CAGAACAACT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.33, C:0.12, G:0.45, T:0.09
Consensus pattern (21 bp):
AAGTAGAGGCTGCAGCGAGGG
Found at i:56985808 original size:43 final size:43
Alignment explanation
Indices: 56985741--56986104 Score: 423
Period size: 43 Copynumber: 8.6 Consensus size: 43
56985731 AATTAGCGAC
* * *
56985741 TTTTTTGCATAAGCGCCACTAAAGACCATGGTCTATAGTGGCA
1 TTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
* * *
56985784 TTTTTTTCCTAAGCGCCGCAAAAGACCATGGTCTATAATGGCG
1 TTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
* * * *
56985827 TTTTTCGCCTAAGCGCCGCAAAAGACCATAGCCTATAGTGGCG
1 TTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
* * *
56985870 TTTTTCGCCTAAGCGCTGCTAAAGACCATGGTCTATAGTGGCA
1 TTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
* ** * *
56985913 TTTGTTGGTTAAGCGCCGTTAAAGACCATGGTCTGTAGTGGCG
1 TTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
* ** * *
56985956 TTTGTTGGTTAAGCGCCGCTAAAGACCACGGTCTATAGTGGCA
1 TTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
* * *
56985999 TTTTTT--TTAAGCGCCGCTAAATACCACGGTCTATAGTGGCG
1 TTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
* *
56986040 TTTTTTG-GTAAGCGCCGCTAAAGACCACGGTCTATAGTGGCG
1 TTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
*
56986082 TTTTTAT--TTAAGCGCCGCTAAAG
1 TTTTT-TGCCTAAGCGCCGCTAAAG
56986105 TTCCTGATCT
Statistics
Matches: 285, Mismatches: 34, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
41 39 0.14
42 53 0.19
43 193 0.68
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (43 bp):
TTTTTTGCCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCG
Found at i:56989326 original size:18 final size:18
Alignment explanation
Indices: 56989282--56989320 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
56989272 TTTAGATTAA
56989282 TTAGAGTTTCATCATACT
1 TTAGAGTTTCATCATACT
56989300 TTAGAGTTTCATCATACT
1 TTAGAGTTTCATCATACT
56989318 TTA
1 TTA
56989321 TGGTTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.46
Consensus pattern (18 bp):
TTAGAGTTTCATCATACT
Found at i:56989742 original size:23 final size:23
Alignment explanation
Indices: 56989715--56989778 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 23
56989705 TATTCTTGAA
*
56989715 TTTCTTCTTTC-AGTTATTTTTG
1 TTTCTTCTTTCAAGTTATGTTTG
* *
56989737 TTTTCTTTGTTTCTAA-ATATGTTTG
1 -TTTC-TTCTTTC-AAGTTATGTTTG
56989762 TTTCTTCTTTCAAGTTA
1 TTTCTTCTTTCAAGTTA
56989779 GATCTGAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
22 2 0.06
23 12 0.38
24 10 0.31
25 7 0.22
26 1 0.03
ACGTcount: A:0.14, C:0.12, G:0.09, T:0.64
Consensus pattern (23 bp):
TTTCTTCTTTCAAGTTATGTTTG
Found at i:56993387 original size:28 final size:28
Alignment explanation
Indices: 56993295--56993387 Score: 73
Period size: 28 Copynumber: 3.4 Consensus size: 28
56993285 TGAGATTCAA
* * *
56993295 GTTTG-GGTTTTGGATTTAGAGTTCGAG
1 GTTTGAGGTTTAGGATTTAGGGTTTGAG
* * * *
56993322 GTTT-ATGTTTAGGGTTCAGGGTTTGAA
1 GTTTGAGGTTTAGGATTTAGGGTTTGAG
* * * *
56993349 ATTTAATGTTTAGGATTTAGGGTTTGGG
1 GTTTGAGGTTTAGGATTTAGGGTTTGAG
56993377 GTTTGAGGTTT
1 GTTTGAGGTTT
56993388 GAGATTTGAG
Statistics
Matches: 49, Mismatches: 15, Indels: 3
0.73 0.22 0.04
Matches are distributed among these distances:
27 22 0.45
28 27 0.55
ACGTcount: A:0.17, C:0.02, G:0.34, T:0.46
Consensus pattern (28 bp):
GTTTGAGGTTTAGGATTTAGGGTTTGAG
Found at i:57002233 original size:66 final size:66
Alignment explanation
Indices: 57002151--57002305 Score: 247
Period size: 66 Copynumber: 2.3 Consensus size: 66
57002141 ATATACTTGA
* * **
57002151 CACCCAGTGCCTCATCGGATAAATAGAAGTAATTTAATTGCACCCAACTCTCATTGATGTATTTG
1 CACCCAGTGCCTCATCGGATAAATAGAAGTAATTCAATTGCACCCAACACTCATCAATGTATTTG
57002216 G
66 G
* * *
57002217 CACCCAATGCATCATCGGATAAATTGAAGTAATTCAATTGCACCCAACACTCATCAATGTATTTG
1 CACCCAGTGCCTCATCGGATAAATAGAAGTAATTCAATTGCACCCAACACTCATCAATGTATTTG
57002282 G
66 G
57002283 CACCCAGTGCCTCATCGGATAAA
1 CACCCAGTGCCTCATCGGATAAA
57002306 CTGAAGTTAT
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 80 1.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.27
Consensus pattern (66 bp):
CACCCAGTGCCTCATCGGATAAATAGAAGTAATTCAATTGCACCCAACACTCATCAATGTATTTG
G
Found at i:57002323 original size:29 final size:29
Alignment explanation
Indices: 57002289--57002345 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
57002279 TTGGCACCCA
*
57002289 GTGCCTCATCGGATAAACTGAAGTTATTG
1 GTGCCTCATCGAATAAACTGAAGTTATTG
* *
57002318 GTGCCTTATTGAATAAACTGAAGTTATT
1 GTGCCTCATCGAATAAACTGAAGTTATT
57002346 CAATTGCACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (29 bp):
GTGCCTCATCGAATAAACTGAAGTTATTG
Found at i:57002408 original size:95 final size:95
Alignment explanation
Indices: 57002235--57002411 Score: 257
Period size: 95 Copynumber: 1.9 Consensus size: 95
57002225 GCATCATCGG
*
57002235 ATAAATTGAAGTAATTCAATTGCACCCAACACTCATCAATGTATTTGGCACCCAGTGCCTCATCG
1 ATAAACTGAAGTAATTCAATTGCACCCAACACTCATCAATGTATTTGGCACCCAGTGCCTCATCG
*
57002300 GATAAACTGAAGTTATTGGTGCCTTATTGA
66 GATAAACTAAAGTTATTGGTGCCTTATTGA
* ** * **
57002330 ATAAACTGAAGTTATTCAATTGCACCCAACGTTCATCAATGTATTTGGCACCTAGTTTCTCATCG
1 ATAAACTGAAGTAATTCAATTGCACCCAACACTCATCAATGTATTTGGCACCCAGTGCCTCATCG
*
57002395 GATATA-TCAAAGTTATT
66 GATAAACT-AAAGTTATT
57002412 TAATTGTGCC
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
94 1 0.01
95 71 0.99
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (95 bp):
ATAAACTGAAGTAATTCAATTGCACCCAACACTCATCAATGTATTTGGCACCCAGTGCCTCATCG
GATAAACTAAAGTTATTGGTGCCTTATTGA
Found at i:57002417 original size:66 final size:65
Alignment explanation
Indices: 57002338--57002460 Score: 156
Period size: 65 Copynumber: 1.9 Consensus size: 65
57002328 GAATAAACTG
* **
57002338 AAGTTATTCAATTGCACCCAACGTTCATCAATGTATTTGGCACCTAGTTTCTCATCGGATATATC
1 AAGTTATTCAATTG-ACCCAACATTCATCAATGTATTTGGCACCTAGTGCCTCATCGGATATATC
57002403 A
65 A
* ** * **
57002404 AAGTTATTTAATTGTGCCAACATTTATTGATGTATTTGGCACCTAGTGCCTCATCGG
1 AAGTTATTCAATTGACCCAACATTCATCAATGTATTTGGCACCTAGTGCCTCATCGG
57002461 GTAACCCGAA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
65 35 0.73
66 13 0.27
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (65 bp):
AAGTTATTCAATTGACCCAACATTCATCAATGTATTTGGCACCTAGTGCCTCATCGGATATATCA
Found at i:57005159 original size:6 final size:6
Alignment explanation
Indices: 57005150--57005178 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
57005140 AAATAAAATT
57005150 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
57005179 GTCTAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:57005232 original size:9 final size:9
Alignment explanation
Indices: 57005213--57005293 Score: 74
Period size: 9 Copynumber: 8.9 Consensus size: 9
57005203 ATTATGTAGT
57005213 GATTCAATTC
1 GATT-AATTC
57005223 GATTAATTC
1 GATTAATTC
57005232 GATTAATTC
1 GATTAATTC
*
57005241 GAGTAATTC
1 GATTAATTC
*
57005250 GGTTAATTC
1 GATTAATTC
*
57005259 GGA-TAATCC
1 -GATTAATTC
*
57005268 GGTTAATTC
1 GATTAATTC
**
57005277 GGGTAATTC
1 GATTAATTC
*
57005286 GGTTAATT
1 GATTAATT
57005294 TTTAACCAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
8 1 0.02
9 54 0.90
10 5 0.08
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (9 bp):
GATTAATTC
Found at i:57005241 original size:18 final size:18
Alignment explanation
Indices: 57005218--57005293 Score: 100
Period size: 18 Copynumber: 4.2 Consensus size: 18
57005208 GTAGTGATTC
* *
57005218 AATTCGATTAATTCGATT
1 AATTCGAGTAATTCGGTT
57005236 AATTCGAGTAATTCGGTT
1 AATTCGAGTAATTCGGTT
*
57005254 AATTCG-GATAATCCGGTT
1 AATTCGAG-TAATTCGGTT
*
57005272 AATTCGGGTAATTCGGTT
1 AATTCGAGTAATTCGGTT
57005290 AATT
1 AATT
57005294 TTTAACCAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
17 1 0.02
18 50 0.96
19 1 0.02
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (18 bp):
AATTCGAGTAATTCGGTT
Found at i:57005250 original size:27 final size:27
Alignment explanation
Indices: 57005218--57005293 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 27
57005208 GTAGTGATTC
*
57005218 AATTCGATTAATTCGATTAATTCGAG-T
1 AATTCGGTTAATTCGATTAATTCG-GTT
*
57005245 AATTCGGTTAATTCGGA-TAATCCGGTT
1 AATTCGGTTAATTC-GATTAATTCGGTT
* *
57005272 AATTCGGGTAATTCGGTTAATT
1 AATTCGGTTAATTCGATTAATT
57005294 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
26 2 0.05
27 37 0.90
28 2 0.05
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (27 bp):
AATTCGGTTAATTCGATTAATTCGGTT
Found at i:57006676 original size:37 final size:35
Alignment explanation
Indices: 57006634--57006719 Score: 104
Period size: 34 Copynumber: 2.4 Consensus size: 35
57006624 TTGTTATTCA
* *
57006634 ATTTTAATAGGATTATTATTAAAAATAATTTAATTAT
1 ATTTTAATA--ATAATTATTAAAAATAATTTAATAAT
*
57006671 ATTTTAAT-ATAATTATTAAATATAATTTAATAAT
1 ATTTTAATAATAATTATTAAAAATAATTTAATAAT
57006705 ATTTTTAAT-ATAATT
1 A-TTTTAATAATAATT
57006720 TTTATATTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
34 24 0.53
35 13 0.29
37 8 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (35 bp):
ATTTTAATAATAATTATTAAAAATAATTTAATAAT
Found at i:57006686 original size:34 final size:35
Alignment explanation
Indices: 57006648--57006719 Score: 119
Period size: 34 Copynumber: 2.1 Consensus size: 35
57006638 TAATAGGATT
*
57006648 ATTATTAAAAATAATTTAATTATA-TTTTAATATA
1 ATTATTAAAAATAATTTAATAATATTTTTAATATA
*
57006682 ATTATTAAATATAATTTAATAATATTTTTAATATA
1 ATTATTAAAAATAATTTAATAATATTTTTAATATA
57006717 ATT
1 ATT
57006720 TTTATATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 22 0.63
35 13 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (35 bp):
ATTATTAAAAATAATTTAATAATATTTTTAATATA
Found at i:57006694 original size:13 final size:12
Alignment explanation
Indices: 57006652--57006721 Score: 53
Period size: 11 Copynumber: 6.2 Consensus size: 12
57006642 AGGATTATTA
*
57006652 TTAAAAATAA-T
1 TTAAATATAATT
*
57006663 TTAATTAT-ATT
1 TTAAATATAATT
57006674 TT-AATATAATT
1 TTAAATATAATT
57006685 ATTAAATATAA-T
1 -TTAAATATAATT
57006697 TT-AATA-ATATT
1 TTAAATATA-ATT
*
57006708 TTTAATATAATT
1 TTAAATATAATT
57006720 TT
1 TT
57006722 TATATTAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
9 1 0.02
10 10 0.21
11 17 0.35
12 12 0.25
13 8 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TTAAATATAATT
Found at i:57006712 original size:23 final size:23
Alignment explanation
Indices: 57006662--57006720 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
57006652 TTAAAAATAA
* *
57006662 TTTAATTATATTTTAATATAATT
1 TTTAAATATAATTTAATATAATT
*
57006685 ATTAAATATAATTTAATA-ATATT
1 TTTAAATATAATTTAATATA-ATT
57006708 TTT-AATATAATTT
1 TTTAAATATAATTT
57006721 TTATATTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 11 0.35
23 20 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TTTAAATATAATTTAATATAATT
Found at i:57006726 original size:11 final size:12
Alignment explanation
Indices: 57006672--57006723 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
57006662 TTTAATTATA
57006672 TTTTAATATAAT
1 TTTTAATATAAT
*
57006684 TATTAAATATAA-
1 T-TTTAATATAAT
57006696 -TTTAATA-ATAT
1 TTTTAATATA-AT
57006707 TTTTAATATAAT
1 TTTTAATATAAT
57006719 TTTTA
1 TTTTA
57006724 TATTAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
9 1 0.03
10 7 0.21
12 15 0.45
13 10 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTTAATATAAT
Found at i:57009325 original size:25 final size:23
Alignment explanation
Indices: 57009297--57009350 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
57009287 AATATTTTCA
* *
57009297 AGATTAAAATTACTTTTGATGTGTG
1 AGATTAAAA-AACTATTGATGT-TG
*
57009322 AGATGAAAAAACTATTGATGTTG
1 AGATTAAAAAACTATTGATGTTG
57009345 AGATTA
1 AGATTA
57009351 TTTTCAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 7 0.28
24 10 0.40
25 8 0.32
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (23 bp):
AGATTAAAAAACTATTGATGTTG
Found at i:57009576 original size:18 final size:19
Alignment explanation
Indices: 57009553--57009588 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
57009543 AGGAAAACTA
57009553 TTTTA-TCTTTTTAATTTC
1 TTTTATTCTTTTTAATTTC
*
57009571 TTTTATTCTTTTTCATTT
1 TTTTATTCTTTTTAATTT
57009589 TTTAGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTATTCTTTTTAATTTC
Found at i:57009883 original size:31 final size:31
Alignment explanation
Indices: 57009848--57009919 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
57009838 TATGTGGAAC
57009848 AAACTTAGGGTTTCATCTCAACAATATGTAA
1 AAACTTAGGGTTTCATCTCAACAATATGTAA
*
57009879 AAACTTAGGGTTTCATCTCAACAATCTGTAA
1 AAACTTAGGGTTTCATCTCAACAATATGTAA
57009910 AAACTTAGGG
1 AAACTTAGGG
57009920 CTTTTTATCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.31
Consensus pattern (31 bp):
AAACTTAGGGTTTCATCTCAACAATATGTAA
Found at i:57011462 original size:23 final size:21
Alignment explanation
Indices: 57011422--57011464 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
57011412 AGAAGTAGAA
*
57011422 TCGAAGAAGAGAAGAAGAAAT
1 TCGAAGAAGAGAAAAAGAAAT
57011443 TCGAGAGAGAGAGAAAAAGAAA
1 TCGA-AGA-AGAGAAAAAGAAA
57011465 ACTAGAACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 3 0.16
23 12 0.63
ACGTcount: A:0.58, C:0.05, G:0.30, T:0.07
Consensus pattern (21 bp):
TCGAAGAAGAGAAAAAGAAAT
Found at i:57012591 original size:23 final size:21
Alignment explanation
Indices: 57012551--57012593 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
57012541 AGAAGTAGAA
*
57012551 TCGAAGAAGAGAAGAAGAAAT
1 TCGAAGAAGAGAAAAAGAAAT
57012572 TCGAGAGAGAGAGAAAAAGAAA
1 TCGA-AGA-AGAGAAAAAGAAA
57012594 ACTAGAACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 3 0.16
23 12 0.63
ACGTcount: A:0.58, C:0.05, G:0.30, T:0.07
Consensus pattern (21 bp):
TCGAAGAAGAGAAAAAGAAAT
Found at i:57017531 original size:23 final size:21
Alignment explanation
Indices: 57017491--57017533 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
57017481 AGAAGTAGAA
*
57017491 TCGAAGAAGAGAAGAAGAAAT
1 TCGAAGAAGAGAAAAAGAAAT
57017512 TCGAGAGAGAGAGAAAAAGAAA
1 TCGA-AGA-AGAGAAAAAGAAA
57017534 ACTAGAACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 3 0.16
23 12 0.63
ACGTcount: A:0.58, C:0.05, G:0.30, T:0.07
Consensus pattern (21 bp):
TCGAAGAAGAGAAAAAGAAAT
Found at i:57026097 original size:44 final size:46
Alignment explanation
Indices: 57026048--57026168 Score: 147
Period size: 46 Copynumber: 2.7 Consensus size: 46
57026038 TAACAACCCG
57026048 CATTTTTAGGCTAGTTTTTAGGGA-TT-TTTTTTCTTAGCCATCCA
1 CATTTTTAGGCTAGTTTTTAGGGATTTGTTTTTTCTTAGCCATCCA
* * * * * *
57026092 TATTTTTAAGTTACTTTTCAGGGATTTGTTTTTTCTTAGTCATCCA
1 CATTTTTAGGCTAGTTTTTAGGGATTTGTTTTTTCTTAGCCATCCA
* *
57026138 CATTTCCTAGGCTAGTTTTTAGGGAATTGTT
1 CATTT-TTAGGCTAGTTTTTAGGGATTTGTT
57026169 ACTCTTTTTT
Statistics
Matches: 61, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
44 19 0.31
45 2 0.03
46 21 0.34
47 19 0.31
ACGTcount: A:0.19, C:0.14, G:0.17, T:0.50
Consensus pattern (46 bp):
CATTTTTAGGCTAGTTTTTAGGGATTTGTTTTTTCTTAGCCATCCA
Found at i:57027295 original size:14 final size:13
Alignment explanation
Indices: 57027268--57027292 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57027258 AAACACAGTT
57027268 TATCTCAATTTTA
1 TATCTCAATTTTA
57027281 TATCTCAATTTT
1 TATCTCAATTTT
57027293 TATTTATCTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.16, G:0.00, T:0.56
Consensus pattern (13 bp):
TATCTCAATTTTA
Found at i:57028901 original size:32 final size:32
Alignment explanation
Indices: 57028862--57029067 Score: 148
Period size: 32 Copynumber: 6.8 Consensus size: 32
57028852 TTGAAATTTT
* *
57028862 AGTTTGTTGGATTTTGAAATTATTATGTATTGA
1 AGTTTGTTAGATATTGAAATTATTATGT-TTGA
*
57028895 A-TTTGTTAGATA-T----TTATTATGTTTTA
1 AGTTTGTTAGATATTGAAATTATTATGTTTGA
* * *
57028921 AGCTTGTTAGATATTGAATTTATTATGTTTTA
1 AGTTTGTTAGATATTGAAATTATTATGTTTGA
* * * * *
57028953 AGCTCGTTGGATTTTGAAATTATTAGGTATTGA
1 AGTTTGTTAGATATTGAAATTATTATGT-TTGA
*
57028986 A-TTTGTTAGATATTG-----ATTATGTTTTA
1 AGTTTGTTAGATATTGAAATTATTATGTTTGA
* ** *
57029012 AGCTTGTTAGATATTGATCTTATTATGTTTTA
1 AGTTTGTTAGATATTGAAATTATTATGTTTGA
* *
57029044 AGCTTGTTGGATATTGAAATTATT
1 AGTTTGTTAGATATTGAAATTATT
57029068 GACAATGACA
Statistics
Matches: 140, Mismatches: 20, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
26 8 0.06
27 38 0.27
28 1 0.01
31 1 0.01
32 87 0.62
33 5 0.04
ACGTcount: A:0.27, C:0.03, G:0.18, T:0.52
Consensus pattern (32 bp):
AGTTTGTTAGATATTGAAATTATTATGTTTGA
Found at i:57028973 original size:91 final size:91
Alignment explanation
Indices: 57028867--57029067 Score: 350
Period size: 91 Copynumber: 2.2 Consensus size: 91
57028857 ATTTTAGTTT
* *
57028867 GTTGGATTTTGAAATTATTATGTATTGAATTTGTTAGATATTTATTATGTTTTAAGCTTGTTAGA
1 GTTGGATTTTGAAATTATTAGGTATTGAATTTGTTAGATATTGATTATGTTTTAAGCTTGTTAGA
57028932 TATTGAAT-TTATTATGTTTTAAGCTC
66 TATTG-ATCTTATTATGTTTTAAGCTC
57028958 GTTGGATTTTGAAATTATTAGGTATTGAATTTGTTAGATATTGATTATGTTTTAAGCTTGTTAGA
1 GTTGGATTTTGAAATTATTAGGTATTGAATTTGTTAGATATTGATTATGTTTTAAGCTTGTTAGA
*
57029023 TATTGATCTTATTATGTTTTAAGCTT
66 TATTGATCTTATTATGTTTTAAGCTC
*
57029049 GTTGGATATTGAAATTATT
1 GTTGGATTTTGAAATTATT
57029068 GACAATGACA
Statistics
Matches: 105, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
90 2 0.02
91 103 0.98
ACGTcount: A:0.27, C:0.03, G:0.18, T:0.52
Consensus pattern (91 bp):
GTTGGATTTTGAAATTATTAGGTATTGAATTTGTTAGATATTGATTATGTTTTAAGCTTGTTAGA
TATTGATCTTATTATGTTTTAAGCTC
Found at i:57029051 original size:59 final size:59
Alignment explanation
Indices: 57028908--57029060 Score: 164
Period size: 59 Copynumber: 2.5 Consensus size: 59
57028898 TGTTAGATAT
* *
57028908 TTATTATGTTTTAAGCTTGTTAGATATTGAATTTATTATGTTTTAAGCTCGTTGGATTTTGAAA
1 TTATTATGTTTTAAGCTTGTTAGATATTG-----ATTATGTTTTAAGCTCGTTAGATATTGAAA
* * * * **
57028972 TTATTAGGTATTGAA-TTTGTTAGATATTGATTATGTTTTAAGCTTGTTAGATATTGATC
1 TTATTATGT-TTTAAGCTTGTTAGATATTGATTATGTTTTAAGCTCGTTAGATATTGAAA
*
57029031 TTATTATGTTTTAAGCTTGTTGGATATTGA
1 TTATTATGTTTTAAGCTTGTTAGATATTGA
57029061 AATTATTGAC
Statistics
Matches: 75, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
58 4 0.05
59 46 0.61
64 21 0.28
65 4 0.05
ACGTcount: A:0.26, C:0.04, G:0.18, T:0.52
Consensus pattern (59 bp):
TTATTATGTTTTAAGCTTGTTAGATATTGATTATGTTTTAAGCTCGTTAGATATTGAAA
Found at i:57031322 original size:43 final size:44
Alignment explanation
Indices: 57031274--57031381 Score: 137
Period size: 44 Copynumber: 2.5 Consensus size: 44
57031264 TAACAACCCG
57031274 CATTTTTAGGCTAGTTTTTAGGGA-TTTTTTTCTTAGCCATCCA
1 CATTTTTAGGCTAGTTTTTAGGGATTTTTTTTCTTAGCCATCCA
* * * * * *
57031317 TATTTTTAAGTTACTTTTCAGGGATTTTTTTTCTTAGTCATCCA
1 CATTTTTAGGCTAGTTTTTAGGGATTTTTTTTCTTAGCCATCCA
*
57031361 CATTTTCTAGGCTAGATTTTA
1 CATTTT-TAGGCTAGTTTTTA
57031382 AGGAATTGTT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
43 19 0.37
44 23 0.45
45 9 0.18
ACGTcount: A:0.20, C:0.15, G:0.14, T:0.51
Consensus pattern (44 bp):
CATTTTTAGGCTAGTTTTTAGGGATTTTTTTTCTTAGCCATCCA
Found at i:57040382 original size:21 final size:21
Alignment explanation
Indices: 57040356--57040463 Score: 81
Period size: 21 Copynumber: 5.1 Consensus size: 21
57040346 AGCAGCTTAG
*
57040356 AGCAGATGCGGCAGCAAGAGA
1 AGCAGAGGCGGCAGCAAGAGA
57040377 AGCAGAGGCGGCAGCAAGAGA
1 AGCAGAGGCGGCAGCAAGAGA
* * * * * *
57040398 AGAACAGGCTGCAACGAGGGA
1 AGCAGAGGCGGCAGCAAGAGA
*** * *
57040419 AGCAGAGGCTAAAGCGAGGGA
1 AGCAGAGGCGGCAGCAAGAGA
* * *
57040440 AGCAGAGGCTGCAGCGAGGGA
1 AGCAGAGGCGGCAGCAAGAGA
57040461 AGC
1 AGC
57040464 CGAGCAACGT
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 73 1.00
ACGTcount: A:0.36, C:0.19, G:0.42, T:0.04
Consensus pattern (21 bp):
AGCAGAGGCGGCAGCAAGAGA
Found at i:57040422 original size:42 final size:42
Alignment explanation
Indices: 57040375--57040463 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
57040365 GGCAGCAAGA
**
57040375 GAAGCAGAGGCGGCAGCAAGAGAAGAACAGGCTGCAACGAGG
1 GAAGCAGAGGCGAAAGCAAGAGAAGAACAGGCTGCAACGAGG
* * * * * *
57040417 GAAGCAGAGGCTAAAGCGAGGGAAGCAGAGGCTGCAGCGAGG
1 GAAGCAGAGGCGAAAGCAAGAGAAGAACAGGCTGCAACGAGG
57040459 GAAGC
1 GAAGC
57040464 CGAGCAACGT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.36, C:0.18, G:0.43, T:0.03
Consensus pattern (42 bp):
GAAGCAGAGGCGAAAGCAAGAGAAGAACAGGCTGCAACGAGG
Found at i:57040802 original size:43 final size:43
Alignment explanation
Indices: 57040741--57041088 Score: 296
Period size: 43 Copynumber: 8.1 Consensus size: 43
57040731 NNNNNNNNNN
** * *
57040741 CGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGGTCTTTAG
1 CGGCGTTTGTGGCGAAAGCGCCGCTAAAGATCAGGGTCTTTAG
* * *
57040784 CGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAGGTTCTTTAG
1 CGGCGTTTGTGGCGAAAGCGCCGCTAAAGATCAGGGTCTTTAG
* * *
57040827 TGGCGTTTTGTTGTCG-AAGCGCCGCTATAGATCAGGGTCTATT-G
1 CGGCG-TTTG-TGGCGAAAGCGCCGCTAAAGATCAGGGTCT-TTAG
* * * *
57040871 CGGCGTTTGAGGGGAAAGCGCCGCTAAAGATTAGGTTCTTTAG
1 CGGCGTTTGTGGCGAAAGCGCCGCTAAAGATCAGGGTCTTTAG
* * *
57040914 TGGCGTTTGTGGTC-AAAGTGCCGCTATAGATCAGGGTCTATT-G
1 CGGCGTTTGTGG-CGAAAGCGCCGCTAAAGATCAGGGTCT-TTAG
* ** *
57040957 CGGCGTTTG-AGAAAAAACGCCGCTAAAGATCAGGGTCTTTAG
1 CGGCGTTTGTGGCGAAAGCGCCGCTAAAGATCAGGGTCTTTAG
* *** * * *** *
57040999 CGGCGCTT-CCACTAAAGCGCCGCTAAAGGTCTTAGTTTTTAG
1 CGGCGTTTGTGGCGAAAGCGCCGCTAAAGATCAGGGTCTTTAG
* *
57041041 CGACGTTTGT-GCTAGAAGCGCCGCTAAAGATCAGGGTCTTTAG
1 CGGCGTTTGTGGCGA-AAGCGCCGCTAAAGATCAGGGTCTTTAG
57041084 CGGCG
1 CGGCG
57041089 ATTTTTTTAA
Statistics
Matches: 240, Mismatches: 53, Indels: 24
0.76 0.17 0.08
Matches are distributed among these distances:
41 2 0.01
42 67 0.28
43 134 0.56
44 32 0.13
45 5 0.02
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.27
Consensus pattern (43 bp):
CGGCGTTTGTGGCGAAAGCGCCGCTAAAGATCAGGGTCTTTAG
Found at i:57040892 original size:87 final size:86
Alignment explanation
Indices: 57040742--57041003 Score: 357
Period size: 87 Copynumber: 3.0 Consensus size: 86
57040732 NNNNNNNNNC
** * * * *
57040742 GGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGGTCT-TTAGCGGCGTTTGTGGGGAAAGCGCC
1 GGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTGAGGGGAAAGCGCC
57040806 GCTAAAGATTAGGTTCTTTAGT
65 GCTAAAGATTAGGTTCTTTAGT
* *
57040828 GGCGTTTTGTTGTCGAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGAAAGCGCC
1 GGCG-TTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGAAAGCGCC
57040893 GCTAAAGATTAGGTTCTTTAGT
65 GCTAAAGATTAGGTTCTTTAGT
* ** *
57040915 GGCGTTTGTGGTCAAAGTGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGA-GAAAAAACGCCG
1 GGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGAAAGCGCCG
* * *
57040979 CTAAAGATCAGGGTCTTTAGC
66 CTAAAGATTAGGTTCTTTAGT
57041000 GGCG
1 GGCG
57041004 CTTCCACTAA
Statistics
Matches: 157, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
85 31 0.20
86 49 0.31
87 75 0.48
88 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (86 bp):
GGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGAAAGCGCCG
CTAAAGATTAGGTTCTTTAGT
Found at i:57041209 original size:22 final size:22
Alignment explanation
Indices: 57041173--57041215 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
57041163 CTACGGCGCT
* * *
57041173 AAAAAGCGTCGCTAAAGGCCTA
1 AAAAAGCGCCACTAAAAGCCTA
57041195 AAAAAGCGCCACTAAAAGCCT
1 AAAAAGCGCCACTAAAAGCCT
57041216 GTTTTGGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.12
Consensus pattern (22 bp):
AAAAAGCGCCACTAAAAGCCTA
Found at i:57042052 original size:8 final size:9
Alignment explanation
Indices: 57042033--57042066 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
57042023 TATTTTTTTT
57042033 AAAATTTAA
1 AAAATTTAA
57042042 AAAATTTAA
1 AAAATTTAA
*
57042051 AAAATATATA
1 AAAATTTA-A
57042061 AAAATT
1 AAAATT
57042067 AATTATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAATTTAA
Found at i:57042405 original size:16 final size:16
Alignment explanation
Indices: 57042372--57042420 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
57042362 AAACCATTCA
* *
57042372 AAAAATTAAAATCATTT
1 AAAAATTAATAT-TTTT
57042389 AAAAATTAATATTTTT
1 AAAAATTAATATTTTT
*
57042405 AATAATTTAATATTTT
1 AA-AAATTAATATTTT
57042421 ACACATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 5 0.18
17 23 0.82
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
AAAAATTAATATTTTT
Found at i:57044541 original size:98 final size:98
Alignment explanation
Indices: 57044419--57044608 Score: 308
Period size: 98 Copynumber: 1.9 Consensus size: 98
57044409 AATCATGAAG
* *
57044419 GAAATATTTCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
* *
57044484 TCTTGGATAAGTTGATGTTCTTTTAAATTAAAA
66 TCTTGGATAAGTGGATGCTCTTTTAAATTAAAA
* * *
57044517 GAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGGTTTCTTAAA
1 GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
*
57044582 TCTTGGATGAGTGGATGCTCTTTTAAA
66 TCTTGGATAAGTGGATGCTCTTTTAAA
57044609 ATTTTTATAT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 84 1.00
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (98 bp):
GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
TCTTGGATAAGTGGATGCTCTTTTAAATTAAAA
Found at i:57048244 original size:87 final size:87
Alignment explanation
Indices: 57048098--57048270 Score: 337
Period size: 87 Copynumber: 2.0 Consensus size: 87
57048088 GTTGGTACTC
57048098 AACAATGAAGAAGGAGACAACGAGGGACCTGTTTATTCCTCAGGACTTACTTCTCAACAAGCGGG
1 AACAATGAAGAAGGAGACAACGAGGGACCTGTTTATTCCTCAGGACTTACTTCTCAACAAGCGGG
*
57048163 GATATATCCGCGCAAATCCTCT
66 GATATATCCCCGCAAATCCTCT
57048185 AACAATGAAGAAGGAGACAACGAGGGACCTGTTTATTCCTCAGGACTTACTTCTCAACAAGCGGG
1 AACAATGAAGAAGGAGACAACGAGGGACCTGTTTATTCCTCAGGACTTACTTCTCAACAAGCGGG
57048250 GATATATCCCCGCAAATCCTC
66 GATATATCCCCGCAAATCCTC
57048271 CGTTACTATC
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.21
Consensus pattern (87 bp):
AACAATGAAGAAGGAGACAACGAGGGACCTGTTTATTCCTCAGGACTTACTTCTCAACAAGCGGG
GATATATCCCCGCAAATCCTCT
Found at i:57060216 original size:44 final size:44
Alignment explanation
Indices: 57060168--57061009 Score: 145
Period size: 44 Copynumber: 19.2 Consensus size: 44
57060158 AAGATTATAG
*
57060168 ATCTTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGAAGACGGCGA
* * ** *
57060212 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GGAA-CAGATTGAAGACGGCGA
* * * * * * ** *
57060255 AGCCTTGTCTTCCTGAGCAGCAGTGGAGA-AGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGA-ACAGATTGAAGACGGCGA
* * * * *
57060299 GATCTTATCTCCATAAGCAGTAGTGGAGCAGATCGAATACGGTGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGAAGACGGCGA
* * ** *
57060344 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GGAA-CAGATTGAAGACGGCGA
* * * * * * ** *
57060387 AGCCTTGTCTTCCTGAGCAGCAGTGGAGA-AGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGA-ACAGATTGAAGACGGCGA
* * *
57060431 GATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGAAGACGGCGA
* * ** *
57060476 ATCTTATCTTTCC-AAG-A-TAGTGGAAAGCAGATTTAAGACACCAA
1 ATCTTATC-TCCCTAAGCAGTAGTGG-AA-CAGATTGAAGACGGCGA
* * * * * * ** **
57060520 ACCTTGTCTCCCTGAA-CAGCAAT-GAAGAAGGTTGAAGATTGTAA
1 ATCTTATCTCCCT-AAGCAGTAGTGGAA-CAGATTGAAGACGGCGA
* * *
57060564 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGAAGACGGCGA
* * ** *
57060608 ATCTTATCTTTCC-AAG-A-TAGTGGGAAACAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AACAGATTGAAGACGGCGA
* * * * * * * *** *
57060651 AGCCTTGTCTCCCTGAGTAGCAGTGGAGA-GGGTTGAAGTTTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGA-ACAGATTGAAGACGGCGA
* * *
57060695 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGAAGACGGCGA
* * ** *
57060740 ATCTTATCTTTCC-AAG-A-TAGTGAGAAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGTG-GAA-CAGATTGAAGACGGCGA
* * * * * * ** *
57060783 AGCCTTGTCTTCCTGAGCAGCAGTGGAGA-AGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGA-ACAGATTGAAGACGGCGA
* * * *
57060827 GATC-TATCTCCCTAAGCAGTAGTAGAGCAGATCGAAGACGGTGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGAAGACGGCGA
* * ** *
57060871 ATCTTATCTTTCC-AAG-A-TAGTGAGAAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGTG-GAA-CAGATTGAAGACGGCGA
* * * * * * ** *
57060914 AGCCTTGTCTTCCTGAGCAGCAGTGGAGA-AGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGA-ACAGATTGAAGACGGCGA
* *
57060958 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGAAGACGGCGA
57061003 ATCTTAT
1 ATCTTAT
57061010 TTTTCCAAGA
Statistics
Matches: 543, Mismatches: 185, Indels: 140
0.63 0.21 0.16
Matches are distributed among these distances:
42 26 0.05
43 91 0.17
44 353 0.65
45 50 0.09
46 23 0.04
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAACAGATTGAAGACGGCGA
Found at i:57060355 original size:132 final size:132
Alignment explanation
Indices: 57060118--57061276 Score: 1852
Period size: 132 Copynumber: 8.8 Consensus size: 132
57060108 ACTGGTGAAA
* * *
57060118 CACCAAGCCTTGTCTCCCTAAGCAGCAGTGGAGAAGGGTGAAGATTATAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
57060183 GCAGTAGTGGAACAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
57060248 GC
131 GC
* *
57060250 CACCAAGCCTTGTCTTCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCATAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
57060315 GCAGTAGTGGAGCAGATCGAATACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
57060380 GC
131 GC
*
57060382 CACCAAGCCTTGTCTTCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
57060447 GCAGTAGTAGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGAAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
*
57060512 GA
131 GC
* * * * *
57060514 CACCAAACCTTGTCTCCCTGAACAGCAATGAAGAAGGTTGAAGATTGTAAATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
57060579 GCAGTAGTAGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
57060644 GC
131 GC
* * *
57060646 CACCAAGCCTTGTCTCCCTGAGTAGCAGTGGAGAGGGTTGAAGTTTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
57060711 GCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGAGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
57060776 GC
131 GC
*
57060778 CACCAAGCCTTGTCTTCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATC-TATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
57060842 GCAGTAGTAGAGCAGATCGAAGACGGTGAATCTTATCTTTCCAAGATAGTGAGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
57060907 GC
131 GC
*
57060909 CACCAAGCCTTGTCTTCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
57060974 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATTTTTCCAAGATAGTGGGAAGAAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
57061039 GC
131 GC
* * ** * ** *
57061041 CACCAAACCTTGTCTCCCTGAGCAGCAGCGGAGAAAATTGAAAATCATAGATTTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
57061106 GCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTTCCAAGATAGTGGAAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
57061171 GC
131 GC
** * ** * *
57061173 CACCAAATCTTGTCTCCCTGAGCAGCAGCGGAGAAAATTGAAAATTATAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
57061238 GCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTT
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTT
57061277 CCTGAAGTTG
Statistics
Matches: 960, Mismatches: 66, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
131 128 0.13
132 832 0.87
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:57061142 original size:44 final size:44
Alignment explanation
Indices: 57061094--57061299 Score: 130
Period size: 44 Copynumber: 4.7 Consensus size: 44
57061084 ATCATAGATT
**
57061094 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATC
* ** ****
57061138 TTATCTTTCC-AAG-A-TAGTGGAAAGCAGATTTAAGCCACCAAATC
1 TTATC-TCCCTAAGCAGTAGTGG--AGCAGATCGAAGATGGCAAATC
* * * * * * * * *** *
57061182 TTGTCTCCCTGAGCAGCAGCGGAGAAAATTGAAAATTATAGATC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATC
57061226 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATC
* ** *
57061270 TTATCTTCCTGAAGTTGCAGTGGAGCAGAT
1 TTATCTCCCT-AAGCAGTAGTGGAGCAGAT
57061300 TAAAGCCGAC
Statistics
Matches: 115, Mismatches: 40, Indels: 13
0.68 0.24 0.08
Matches are distributed among these distances:
42 6 0.05
43 4 0.03
44 81 0.70
45 20 0.17
46 4 0.03
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (44 bp):
TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATC
Found at i:57061296 original size:45 final size:44
Alignment explanation
Indices: 57061243--57061336 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
57061233 CCTAAGCAGT
* * * * *
57061243 AGTGGAGCAGATCGAAGATGGCAAATCTTATCTTCCTGAAGTTGC
1 AGTGGAGCAGATCAAAGACGAC-AATCCTATCTCCCTGAAGTTGC
* *
57061288 AGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGC
1 AGTGGAGCAGATCAAAGACGACAATCCTATCTCCCTGAAGTTGC
57061332 AGTGG
1 AGTGG
57061337 GATGGATTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 25 0.60
45 17 0.40
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (44 bp):
AGTGGAGCAGATCAAAGACGACAATCCTATCTCCCTGAAGTTGC
Found at i:57061345 original size:44 final size:42
Alignment explanation
Indices: 57061266--57061377 Score: 127
Period size: 44 Copynumber: 2.6 Consensus size: 42
57061256 GAAGATGGCA
* *
57061266 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG-AGATTAAAACC-AC
* *
57061310 AATCCTATCTCCCTGAAGTTGCAGTGG-GATGGATTAAAATCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGA--GATTAAAACCAC
*
57061353 AGATCTTATCTCTCTGAAGTTGCAG
1 A-ATCTTATCTCCCTGAAGTTGCAG
57061378 AGAATAGATT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
42 1 0.02
43 4 0.07
44 54 0.92
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (42 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGAGATTAAAACCAC
Found at i:57063429 original size:98 final size:98
Alignment explanation
Indices: 57063307--57063496 Score: 308
Period size: 98 Copynumber: 1.9 Consensus size: 98
57063297 AATCATGAAG
* *
57063307 GAAATATTTCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
1 GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
* *
57063372 TCTTGGATAAGTTGATGTTCTTTTAAATTAAAA
66 TCTTGGATAAGTGGATGCTCTTTTAAATTAAAA
* * *
57063405 GAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAATGTATTGGGTGTGGTTTCTTAAA
1 GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
*
57063470 TCTTGGATGAGTGGATGCTCTTTTAAA
66 TCTTGGATAAGTGGATGCTCTTTTAAA
57063497 ATTTTTATAT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 84 1.00
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (98 bp):
GAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAA
TCTTGGATAAGTGGATGCTCTTTTAAATTAAAA
Found at i:57070260 original size:15 final size:15
Alignment explanation
Indices: 57070240--57070275 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
57070230 TTTGTAATAG
*
57070240 AATTTTTT-TTACTT
1 AATTTTTTATCACTT
57070254 AATTTTTTATCACTT
1 AATTTTTTATCACTT
57070269 AATTTTT
1 AATTTTT
57070276 CAGTTTATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.67
Consensus pattern (15 bp):
AATTTTTTATCACTT
Found at i:57071353 original size:67 final size:68
Alignment explanation
Indices: 57071199--57071359 Score: 200
Period size: 68 Copynumber: 2.4 Consensus size: 68
57071189 CCGTGAAGGG
* * * *** * *
57071199 TACCATTAGGAGTTGTACCGTGGATGGTAATGCAAATGGGTACCTTTAGGAGTTGTGTCGTGGAT
1 TACCATTAGGAGTTGTACCATGGATGGTAATACAAATAGGTACCTTTAGGAGCCATATCGTAGAT
57071264 AGA
66 AGA
* *
57071267 TACCATTAGGAGTTGTACCATGGGTGGT-ATCACAAATAGGTACCTTTTGGAGCCATATCGTAGA
1 TACCATTAGGAGTTGTACCATGGATGGTAAT-ACAAATAGGTACCTTTAGGAGCCATATCGTAGA
*
57071331 T-GC
65 TAGA
57071334 TACCATTAGGAGTTGTACCATGGATG
1 TACCATTAGGAGTTGTACCATGGATG
57071360 CTACCATGGA
Statistics
Matches: 80, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
67 28 0.35
68 52 0.65
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (68 bp):
TACCATTAGGAGTTGTACCATGGATGGTAATACAAATAGGTACCTTTAGGAGCCATATCGTAGAT
AGA
Found at i:57076476 original size:20 final size:20
Alignment explanation
Indices: 57076451--57076490 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
57076441 TAACGTATAC
57076451 GTATATAAATGTAT-AGATAT
1 GTATATAAAT-TATAAGATAT
57076471 GTATATAAATTATAAGATAT
1 GTATATAAATTATAAGATAT
57076491 AAAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.40
Consensus pattern (20 bp):
GTATATAAATTATAAGATAT
Found at i:57076650 original size:12 final size:12
Alignment explanation
Indices: 57076606--57076656 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
57076596 AATAATAAGC
* *
57076606 ATAATAATAGTA
1 ATAAAAATAATA
* *
57076618 ATAACAATATTA
1 ATAAAAATAATA
57076630 A-AAAAATAATA
1 ATAAAAATAATA
*
57076641 ATAAAAATAATG
1 ATAAAAATAATA
57076653 ATAA
1 ATAA
57076657 CATTATTGAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (12 bp):
ATAAAAATAATA
Found at i:57081917 original size:24 final size:24
Alignment explanation
Indices: 57081897--57081946 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
57081887 GGTAATAATA
57081897 AAATACATGTGTAATAAAATATAT
1 AAATACATGTGTAATAAAATATAT
* * * *
57081921 ACATACATTTGTAATAATATGTAT
1 AAATACATGTGTAATAAAATATAT
57081945 AA
1 AA
57081947 TTTACCTATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (24 bp):
AAATACATGTGTAATAAAATATAT
Found at i:57082005 original size:16 final size:16
Alignment explanation
Indices: 57081986--57082022 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
57081976 TAGATTAAAA
*
57081986 TATTATTATATTATAT
1 TATTATTATATTACAT
57082002 TATTATTATATTACAT
1 TATTATTATATTACAT
57082018 TATTA
1 TATTA
57082023 ATAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTATATTACAT
Found at i:57082067 original size:18 final size:17
Alignment explanation
Indices: 57082025--57082067 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
57082015 CATTATTAAT
* *
57082025 AAAAAAAAAAGAAATGA
1 AAAAAAAAAACAAAGGA
*
57082042 AATAAAAAGAACAAAGGA
1 AA-AAAAAAAACAAAGGA
57082060 AAAAAAAA
1 AAAAAAAA
57082068 CTTAAAATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.05
Consensus pattern (17 bp):
AAAAAAAAAACAAAGGA
Found at i:57082106 original size:13 final size:13
Alignment explanation
Indices: 57082088--57082112 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57082078 AACAGAGAAG
57082088 GAAAGAAAGAAAT
1 GAAAGAAAGAAAT
57082101 GAAAGAAAGAAA
1 GAAAGAAAGAAA
57082113 AGGGAAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (13 bp):
GAAAGAAAGAAAT
Found at i:57083067 original size:22 final size:23
Alignment explanation
Indices: 57083019--57083075 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 23
57083009 CTAGCACCAC
*
57083019 AGTGCTCTCCGTTTAGCACATCT
1 AGTGCTCTCTGTTTAGCACATCT
*
57083042 -GTGCTCTCTGTTTAGCAC-TTT
1 AGTGCTCTCTGTTTAGCACATCT
57083063 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
57083076 CATTAGTGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 2 0.06
22 29 0.94
ACGTcount: A:0.12, C:0.26, G:0.19, T:0.42
Consensus pattern (23 bp):
AGTGCTCTCTGTTTAGCACATCT
Found at i:57084563 original size:27 final size:27
Alignment explanation
Indices: 57084533--57084684 Score: 182
Period size: 27 Copynumber: 5.7 Consensus size: 27
57084523 TACCCTATAG
*
57084533 GGGTATTTCAGTAATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* *
57084560 GGGTATTTTGGTAA--TTACCCTTCGG
1 GGGTATTTCGGTAATTTTACCCTTCGA
57084585 GGGTATTTCGGTAATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * *
57084612 GGGTATTTTGATAATTTTACCCTTCGG
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * ** *
57084639 GGGTATTTCAGTCATTTTACTATTTGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
*
57084666 GGGTATTTCGGTTATTTTA
1 GGGTATTTCGGTAATTTTA
57084685 TTACCTTTTC
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
25 23 0.22
27 82 0.78
ACGTcount: A:0.19, C:0.14, G:0.22, T:0.44
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCCTTCGA
Found at i:57084583 original size:25 final size:26
Alignment explanation
Indices: 57084520--57084646 Score: 141
Period size: 27 Copynumber: 4.8 Consensus size: 26
57084510 CAAATCAGTC
* **
57084520 ATTTACCCTATAG-GGGTATTTCAGTA
1 ATTTACCCT-TCGAGGGTATTTTGGTA
57084546 ATTTTACCCTTCGAGGGTATTTTGGTA
1 A-TTTACCCTTCGAGGGTATTTTGGTA
* *
57084573 A-TTACCCTTCGGGGGTATTTCGGTA
1 ATTTACCCTTCGAGGGTATTTTGGTA
*
57084598 ATTTTACCCTTCGAGGGTATTTTGATA
1 A-TTTACCCTTCGAGGGTATTTTGGTA
*
57084625 ATTTTACCCTTCGGGGGTATTT
1 A-TTTACCCTTCGAGGGTATTT
57084647 CAGTCATTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
25 23 0.26
26 3 0.03
27 62 0.70
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.42
Consensus pattern (26 bp):
ATTTACCCTTCGAGGGTATTTTGGTA
Found at i:57084600 original size:52 final size:53
Alignment explanation
Indices: 57084532--57084673 Score: 214
Period size: 54 Copynumber: 2.7 Consensus size: 53
57084522 TTACCCTATA
*
57084532 GGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTTGGTAA-TTACCCTTCG
1 GGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTTGATAATTTACCCTTCG
*
57084584 GGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTTGATAATTTTACCCTTCG
1 GGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTTGATAA-TTTACCCTTCG
* ** *
57084638 GGGGTATTTCAGTCATTTTACTATTTGAGGGTATTT
1 GGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTT
57084674 CGGTTATTTT
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
52 40 0.49
54 41 0.51
ACGTcount: A:0.19, C:0.15, G:0.23, T:0.43
Consensus pattern (53 bp):
GGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTTGATAATTTACCCTTCG
Found at i:57088951 original size:27 final size:27
Alignment explanation
Indices: 57088921--57089047 Score: 152
Period size: 27 Copynumber: 4.8 Consensus size: 27
57088911 TTTACCTTAT
57088921 GAGGGTATTTCGATAATTTTACCCTTC
1 GAGGGTATTTCGATAATTTTACCCTTC
57088948 GAGGGTATTTCGATAA--TTACCCTTC
1 GAGGGTATTTCGATAATTTTACCCTTC
** *
57088973 GAGAATATTTCGATAATTTTACCTTTC
1 GAGGGTATTTCGATAATTTTACCCTTC
* * * *
57089000 GA-GGTATTTTGGTCATTTTACCCATC
1 GAGGGTATTTCGATAATTTTACCCTTC
* *
57089026 GAGGGTATTTCAATTATTTTAC
1 GAGGGTATTTCGATAATTTTAC
57089048 AACCTTTTCG
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
25 23 0.28
26 19 0.23
27 41 0.49
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (27 bp):
GAGGGTATTTCGATAATTTTACCCTTC
Found at i:57096890 original size:18 final size:17
Alignment explanation
Indices: 57096863--57096896 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
57096853 ACAAAGAATG
57096863 AATAAATACAAATAAGC
1 AATAAATACAAATAAGC
*
57096880 AATACAATACACATAAG
1 AATA-AATACAAATAAG
57096897 AGCAATAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.62, C:0.15, G:0.06, T:0.18
Consensus pattern (17 bp):
AATAAATACAAATAAGC
Found at i:57097222 original size:16 final size:15
Alignment explanation
Indices: 57097194--57097237 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
57097184 TACAAAAGAA
57097194 AAAT-ATATAATATACC
1 AAATAATAT-ATATA-C
57097210 AAATAATATATATAC
1 AAATAATATATATAC
57097225 ATAATAATATATA
1 A-AATAATATATA
57097238 AAAAGGTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 2 0.08
16 20 0.77
17 4 0.15
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATAATATATATAC
Found at i:57097337 original size:28 final size:28
Alignment explanation
Indices: 57097283--57097337 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
57097273 TTTTTAAAAG
* * *
57097283 AAAATAATTATATATATATGAATAAGTA
1 AAAATAATAATATATATATAAAAAAGTA
57097311 AAAATATATAATA-ATATATAAAAAAGT
1 AAAATA-ATAATATATATATAAAAAAGT
57097338 TGAAATAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (28 bp):
AAAATAATAATATATATATAAAAAAGTA
Found at i:57097421 original size:28 final size:24
Alignment explanation
Indices: 57097370--57097422 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 24
57097360 AATAGGGTCC
*
57097370 TAGAAAATAAATTATATATATGTA
1 TAGAAAATAAATGATATATATGTA
57097394 TAGATAAATAAAATGATATAATAATGTA
1 TAGA-AAAT-AAATGATAT-AT-ATGTA
57097422 T
1 T
57097423 TATATACTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 4 0.17
25 4 0.17
26 8 0.33
27 2 0.08
28 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (24 bp):
TAGAAAATAAATGATATATATGTA
Found at i:57097628 original size:3 final size:3
Alignment explanation
Indices: 57097622--57097663 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
57097612 AATAGCGGTG
*
57097622 ATA ATA ATA ATA ATA A-A TTA ATA ATA ATA GATTA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA AT
57097664 GTTACTGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 1 0.03
3 29 0.85
4 2 0.06
5 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:57097645 original size:14 final size:14
Alignment explanation
Indices: 57097626--57097663 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
57097616 GCGGTGATAA
57097626 TAATAATAATAAAT
1 TAATAATAATAAAT
*
57097640 TAATAATAATAGAT
1 TAATAATAATAAAT
57097654 TAATAATAAT
1 TAATAATAAT
57097664 GTTACTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (14 bp):
TAATAATAATAAAT
Found at i:57097645 original size:17 final size:17
Alignment explanation
Indices: 57097622--57097663 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
57097612 AATAGCGGTG
57097622 ATAATAATAATA-ATAA
1 ATAATAATAATAGATAA
*
57097638 ATTAATAATAATAGATTA
1 A-TAATAATAATAGATAA
57097656 ATAATAAT
1 ATAATAAT
57097664 GTTACTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 18 0.78
18 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
ATAATAATAATAGATAA
Found at i:57098481 original size:16 final size:15
Alignment explanation
Indices: 57098453--57098486 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
57098443 ATACAAATTC
*
57098453 TTTTTTTGTTTTTCT
1 TTTTTTTGCTTTTCT
57098468 TTTTCTTTGCTTTTCT
1 TTTT-TTTGCTTTTCT
57098484 TTT
1 TTT
57098487 GCTGTTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (15 bp):
TTTTTTTGCTTTTCT
Found at i:57115258 original size:22 final size:21
Alignment explanation
Indices: 57115233--57115306 Score: 69
Period size: 22 Copynumber: 3.2 Consensus size: 21
57115223 TTTAAAATAC
57115233 TTTTAAAATATTTTTTTTAAAT
1 TTTTAAAATATTTTTTTT-AAT
57115255 TTTTAAAATTTTAAATTTTTTTTAA-
1 TTTTAAAA---T--ATTTTTTTTAAT
57115280 TTTTAAAATACTTTTTTTTTAAT
1 TTTTAAAATA--TTTTTTTTAAT
57115303 TTTT
1 TTTT
57115307 GCTTTAATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
20 1 0.02
22 19 0.43
23 4 0.09
25 9 0.20
26 2 0.05
27 9 0.20
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTAAAATATTTTTTTTAAT
Found at i:57115306 original size:58 final size:58
Alignment explanation
Indices: 57115200--57115323 Score: 151
Period size: 58 Copynumber: 2.1 Consensus size: 58
57115190 ATAAAATATA
* *
57115200 TAAATATTTTAATTTTTTTTATTTTTAAAATACTTTTAAAAT-ATTTTTTTTAAATTTT
1 TAAA-ATTTTAATTTTTTTTAATTTTAAAATACTTTTAAAATAATTTTTCTTAAATTTT
**** *
57115258 TAAAATTTTAAATTTTTTTTAATTTTAAAATACTTTTTTTTTAATTTTTGCTTTAATTTT
1 TAAAATTTT-AATTTTTTTTAATTTTAAAATACTTTTAAAATAATTTTT-CTTAAATTTT
57115318 TAAAAT
1 TAAAAT
57115324 AAATTTTTGG
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
57 5 0.09
58 31 0.55
59 6 0.11
60 14 0.25
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (58 bp):
TAAAATTTTAATTTTTTTTAATTTTAAAATACTTTTAAAATAATTTTTCTTAAATTTT
Found at i:57115878 original size:19 final size:19
Alignment explanation
Indices: 57115854--57115890 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
57115844 ATGATGTGTC
57115854 AATAATATAAAAAAATTGA
1 AATAATATAAAAAAATTGA
* *
57115873 AATAATATTAAATAATTG
1 AATAATATAAAAAAATTG
57115891 GTAAGGGATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AATAATATAAAAAAATTGA
Found at i:57117188 original size:15 final size:15
Alignment explanation
Indices: 57117168--57117197 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
57117158 CGCCGCAAAA
57117168 AATGCCGCTGATGTT
1 AATGCCGCTGATGTT
57117183 AATGCCGCTGATGTT
1 AATGCCGCTGATGTT
57117198 TGTGGCGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (15 bp):
AATGCCGCTGATGTT
Found at i:57117264 original size:43 final size:43
Alignment explanation
Indices: 57117216--57117375 Score: 239
Period size: 43 Copynumber: 3.7 Consensus size: 43
57117206 TTATAAAAAT
* *
57117216 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCACTTTTCCCGC
1 AAACGCCGCTAAAGGCCATGTTCTTCAGCGGCACTTTTCCCGC
* * * *
57117259 AAACGCCACTAAAGCCCATGTTCTTTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTAAAGGCCATGTTCTTCAGCGGCACTTTTCCCGC
* **
57117302 AAATGCCGCTAAAGGCCATGTTCTTCAGCGGCACTTTTCCCAA
1 AAACGCCGCTAAAGGCCATGTTCTTCAGCGGCACTTTTCCCGC
57117345 AAACGCCGCTAAAGGCCATGTTCTTCAGCGG
1 AAACGCCGCTAAAGGCCATGTTCTTCAGCGG
57117376 ACGCCGCTAA
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 105 1.00
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGGCCATGTTCTTCAGCGGCACTTTTCCCGC
Found at i:57117389 original size:29 final size:28
Alignment explanation
Indices: 57117347--57117407 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 28
57117337 TTTCCCAAAA
57117347 ACGCCGCTAAAGGCCATGTTCTTCAGCGG
1 ACGCCGCTAAAGGCCATGTTCTTCAGC-G
*
57117376 ACGCCGCTAAAGGCCATGTTCTTTAGCG
1 ACGCCGCTAAAGGCCATGTTCTTCAGCG
57117404 ACGC
1 ACGC
57117408 TTTTCCCACA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.21, C:0.31, G:0.26, T:0.21
Consensus pattern (28 bp):
ACGCCGCTAAAGGCCATGTTCTTCAGCG
Found at i:57117423 original size:72 final size:72
Alignment explanation
Indices: 57117306--57117447 Score: 212
Period size: 72 Copynumber: 2.0 Consensus size: 72
57117296 TCCCGCAAAT
* *
57117306 GCCGCTAAAGGCCATGTTCTTCAGCGGCACTTTTCCCAAAAACGCCGCTAAAGGCCATGTTCTTC
1 GCCGCTAAAGGCCATGTTCTTCAGCGACACTTTTCCCAAAAACGCCGCTAAAGACCATGTTCTTC
57117371 AGCGGAC
66 AGCGGAC
* * * * * *
57117378 GCCGCTAAAGGCCATGTTCTTTAGCGACGCTTTTCCCACAAACGCCGTTAAAGATCATGTTCTTT
1 GCCGCTAAAGGCCATGTTCTTCAGCGACACTTTTCCCAAAAACGCCGCTAAAGACCATGTTCTTC
57117443 AGCGG
66 AGCGG
57117448 CGCTTTTCCC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (72 bp):
GCCGCTAAAGGCCATGTTCTTCAGCGACACTTTTCCCAAAAACGCCGCTAAAGACCATGTTCTTC
AGCGGAC
Found at i:57117437 original size:43 final size:43
Alignment explanation
Indices: 57117376--57117470 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 43
57117366 TCTTCAGCGG
*
57117376 ACGCCGCTAAAGGCCATGTTCTTTAGCGACGCTTTTCCCACAA
1 ACGCCGCTAAAGACCATGTTCTTTAGCGACGCTTTTCCCACAA
* * *
57117419 ACGCCGTTAAAGATCATGTTCTTTAGCGGCGCTTTTCCCACAA
1 ACGCCGCTAAAGACCATGTTCTTTAGCGACGCTTTTCCCACAA
57117462 ACGCCGCTA
1 ACGCCGCTA
57117471 TTGTTTGGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (43 bp):
ACGCCGCTAAAGACCATGTTCTTTAGCGACGCTTTTCCCACAA
Found at i:57117464 original size:115 final size:115
Alignment explanation
Indices: 57117261--57117470 Score: 321
Period size: 115 Copynumber: 1.8 Consensus size: 115
57117251 TTTCCCGCAA
* * * *
57117261 ACGCCACTAAAGCCCATGTTCTTTAGCGGCGCTTTTCCCGCAAATGCCGCTAAAGGCCATGTTCT
1 ACGCCACTAAAGCCCATGTTCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGTTCT
57117326 TCAGCGGCACTTTTCCCAAAAACGCCGCTAAAGGCCATGTTCTTCAGCGG
66 TCAGCGGCACTTTTCCCAAAAACGCCGCTAAAGGCCATGTTCTTCAGCGG
* * * *
57117376 ACGCCGCTAAAGGCCATGTTCTTTAGCGACGCTTTTCCCACAAACGCCGTTAAAGATCATGTTCT
1 ACGCCACTAAAGCCCATGTTCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGTTCT
* * *
57117441 TTAGCGGCGCTTTTCCCACAAACGCCGCTA
66 TCAGCGGCACTTTTCCCAAAAACGCCGCTA
57117471 TTGTTTGGTG
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
115 84 1.00
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (115 bp):
ACGCCACTAAAGCCCATGTTCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGACCATGTTCT
TCAGCGGCACTTTTCCCAAAAACGCCGCTAAAGGCCATGTTCTTCAGCGG
Found at i:57118027 original size:25 final size:26
Alignment explanation
Indices: 57117976--57118037 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
57117966 TTTTACAATG
* *
57117976 ATTAAGTTATGTAAATAATATGAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
*
57118002 ATTAAGTTATGCATAT-ATATAAGTT
1 ATTAAGTTATGCAAATAATATAAGTT
57118027 ATTAAGTTATG
1 ATTAAGTTATG
57118038 TAAGTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 19 0.58
26 14 0.42
ACGTcount: A:0.40, C:0.02, G:0.15, T:0.44
Consensus pattern (26 bp):
ATTAAGTTATGCAAATAATATAAGTT
Found at i:57118041 original size:17 final size:17
Alignment explanation
Indices: 57117976--57118047 Score: 58
Period size: 17 Copynumber: 4.2 Consensus size: 17
57117966 TTTTACAATG
* *
57117976 ATTAAGTTATGTAAATA
1 ATTAAGTTATGTAAGTT
*
57117993 ATATGAGTTAT-TAAGTT
1 AT-TAAGTTATGTAAGTT
** *
57118010 ATGCA-TATATATAAGTT
1 ATTAAGT-TATGTAAGTT
57118027 ATTAAGTTATGTAAGTT
1 ATTAAGTTATGTAAGTT
57118044 ATTA
1 ATTA
57118048 TGTGAGTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
15 1 0.02
16 4 0.09
17 30 0.70
18 8 0.19
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.44
Consensus pattern (17 bp):
ATTAAGTTATGTAAGTT
Found at i:57118162 original size:17 final size:17
Alignment explanation
Indices: 57118140--57118199 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
57118130 ATATATTTTA
57118140 AAATTATTAAGTTATGT
1 AAATTATTAAGTTATGT
* *
57118157 AAATTATGTGAGTTGT-T
1 AAATTAT-TAAGTTATGT
*
57118174 AAGTTATTAAGTTATGT
1 AAATTATTAAGTTATGT
*
57118191 AAGTTATTA
1 AAATTATTA
57118200 TGTGAATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 6 0.17
17 24 0.67
18 6 0.17
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.47
Consensus pattern (17 bp):
AAATTATTAAGTTATGT
Found at i:57118195 original size:9 final size:8
Alignment explanation
Indices: 57118143--57118199 Score: 60
Period size: 9 Copynumber: 6.8 Consensus size: 8
57118133 TATTTTAAAA
57118143 TTATTAAG
1 TTATTAAG
*
57118151 TTATGTAAA
1 TTAT-TAAG
*
57118160 TTATGTGAG
1 TTAT-TAAG
*
57118169 TTGTTAAG
1 TTATTAAG
57118177 TTATTAAG
1 TTATTAAG
57118185 TTATGTAAG
1 TTAT-TAAG
57118194 TTATTA
1 TTATTA
57118200 TGTGAATTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
8 20 0.49
9 21 0.51
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (8 bp):
TTATTAAG
Found at i:57118222 original size:46 final size:46
Alignment explanation
Indices: 57118151--57118323 Score: 159
Period size: 46 Copynumber: 3.6 Consensus size: 46
57118141 AATTATTAAG
* * *
57118151 TTATGTAAATTATGTGAGTTGTTAAGTTATTAAGTTATGTAAGTTA
1 TTATGTAAATTATATAAGTTATTAAGTTATTAAGTTATGTAAGTTA
* * * *
57118197 TTATGTGAATTATATAAGTTATTAAGTTA-TATGGTATGACATATATATATGTA
1 TTATGTAAATTATATAAGTTATTAAGTTATTA-AGT-T---ATGTA-A-GT-TA
* * * *
57118250 TTATGTAAATTATGTGAGTTGTTAAGTTGTTAAGTTATGTAAGTTA
1 TTATGTAAATTATATAAGTTATTAAGTTATTAAGTTATGTAAGTTA
*
57118296 TTATGTGAATTATATAAGTTATTAAGTT
1 TTATGTAAATTATATAAGTTATTAAGTT
57118324 GGACATTTTT
Statistics
Matches: 99, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
45 2 0.02
46 53 0.54
47 2 0.02
48 1 0.01
49 4 0.04
50 4 0.04
51 1 0.01
52 2 0.02
53 28 0.28
54 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (46 bp):
TTATGTAAATTATATAAGTTATTAAGTTATTAAGTTATGTAAGTTA
Found at i:57118228 original size:17 final size:17
Alignment explanation
Indices: 57118143--57118228 Score: 66
Period size: 17 Copynumber: 4.8 Consensus size: 17
57118133 TATTTTAAAA
* *
57118143 TTATTAAGTTATGTAAA
1 TTATTAAGTTATATAAG
* *
57118160 TTATGTGAGTTGT-TAAG
1 TTAT-TAAGTTATATAAG
*
57118177 TTATTAAGTTATGTAAG
1 TTATTAAGTTATATAAG
*
57118194 TTATTATGTGAATTATATAAG
1 TTATTA----AGTTATATAAG
57118215 TTATTAAGTTATAT
1 TTATTAAGTTATAT
57118229 GGTATGACAT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
16 6 0.11
17 28 0.51
18 6 0.11
21 15 0.27
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (17 bp):
TTATTAAGTTATATAAG
Found at i:57118301 original size:53 final size:54
Alignment explanation
Indices: 57118167--57118323 Score: 128
Period size: 53 Copynumber: 2.9 Consensus size: 54
57118157 AAATTATGTG
* * *
57118167 AGTTGTTAAGTTAT-TAAGTTATGTAAGTTATTATGTGAATTATATAAGTTATTA
1 AGTTGTTAAGTTATGTAAGTTATATATG-TATTATGTAAATTATATAAGTTATTA
* * * * * *
57118221 AGTT-ATATGGTATG-ACA-TATATATATGTATTATGTAAATTATGTGAGTTGTTA
1 AGTTGTTAAGTTATGTA-AGT-TATATATGTATTATGTAAATTATATAAGTTATTA
* *
57118274 AGTTGTTAAGTTATGTAAGTTAT-TATGTGAATTATATAAGTTAT-TAAGTT
1 AGTTGTTAAGTTATGTAAGTTATATATGT--ATTATGTAAATTATATAAGTT
57118324 GGACATTTTT
Statistics
Matches: 80, Mismatches: 15, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
53 39 0.49
54 27 0.34
55 14 0.17
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (54 bp):
AGTTGTTAAGTTATGTAAGTTATATATGTATTATGTAAATTATATAAGTTATTA
Found at i:57119544 original size:21 final size:21
Alignment explanation
Indices: 57119520--57119566 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
57119510 TTAACTATTT
* *
57119520 AAATTAGTTAATGATATTGTA
1 AAATTAGATAATGAAATTGTA
* *
57119541 AAATTAGATGATTAAATTGTA
1 AAATTAGATAATGAAATTGTA
57119562 AAATT
1 AAATT
57119567 TCAAATTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (21 bp):
AAATTAGATAATGAAATTGTA
Found at i:57121881 original size:199 final size:199
Alignment explanation
Indices: 57121383--57122268 Score: 1275
Period size: 199 Copynumber: 4.5 Consensus size: 199
57121373 ACAAAAATTT
* * *
57121383 GCGGCGTTTTTACCTTAGC-ACCGCAAAACCCATTAAATTCGCAACCAAAAACTGTACCGTTTTG
1 GCGGCGTTTTTCCCTTAGCGA-CGCAAAACCCATTAAATTCGCAGCCAAAAACTGCACCGTTTTG
* * ** *
57121447 TCTTTATTATTAAGAATATTTTACGTTGTTTTTTAATAGCGCCACTAATGCCCAGGCAAAACGAC
65 TCTTCATTATTAAGAATATTTTGCGGCGTTTTTTAGTAGCGCCACTAATGCCCAGGCAAAACGAC
* *
57121512 ACCGTTTTACGAAAACTGAGAACAGAACTTTGCGGCGTTTTTTCCTTAGCGCCACTAATGACCAC
130 ACCGTTTTACGAAAACTGAGAACAGAACCTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCAC
*
57121577 ATTTA
195 CTTTA
* ** *
57121582 GCAGCGTTTAGCCC-T------GCAAAACCCATTAAATTCGCAGCCAAAAACTGCACAGTTTTGT
1 GCGGCGTTTTTCCCTTAGCGACGCAAAACCCATTAAATTCGCAGCCAAAAACTGCACCGTTTTGT
* *
57121640 CTTCATTATTAAGAATATTTTGCAGCGTTTTTTAGTAGCGCCACTAATGCCCAGGAAAAACGACA
66 CTTCATTATTAAGAATATTTTGCGGCGTTTTTTAGTAGCGCCACTAATGCCCAGGCAAAACGACA
* * * * *
57121705 CCATTTTGCGAAAACTGAGAACAGAACCTTCCAGCGTTTTTTCCTTAGCGCCGCTAATGACAACC
131 CCGTTTTACGAAAACTGAGAACAGAACCTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCACC
*
57121770 CTTA
196 TTTA
* *
57121774 GCGGCATTTTTCCCTTAGCGACGCAAAACCCATTAAATTCGCAGCCAAAAATTGCACCGTTTTGT
1 GCGGCGTTTTTCCCTTAGCGACGCAAAACCCATTAAATTCGCAGCCAAAAACTGCACCGTTTTGT
* *
57121839 CTTCATTATTAAGAATATTTTGCGGCGTTTTTTACTAGCGCCACTAATGCCTAGGCAAAACGACA
66 CTTCATTATTAAGAATATTTTGCGGCGTTTTTTAGTAGCGCCACTAATGCCCAGGCAAAACGACA
* * *
57121904 CCGTTTTACGAAAAATGAGAACAGAACTTTGCGGCGTTTTTTCCTTAGCGTCGCTAATGACCACC
131 CCGTTTTACGAAAACTGAGAACAGAACCTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCACC
57121969 TTTA
196 TTTA
* *
57121973 GCGGCGTTTTTCCCTTAGCGCCGCAAAACCCATTAAATTCGTAGCCAAAAACTGCACCGTTTTGT
1 GCGGCGTTTTTCCCTTAGCGACGCAAAACCCATTAAATTCGCAGCCAAAAACTGCACCGTTTTGT
* * **
57122038 CTTCATTATTAAGAATATTTTGTGGCGTTTTTTAGTAGCGCCACTAATGCCTAGGTTAAACGACA
66 CTTCATTATTAAGAATATTTTGCGGCGTTTTTTAGTAGCGCCACTAATGCCCAGGCAAAACGACA
* * * * * * * *
57122103 CCGTTTTGCGAAAACTGATAACCGAAACTTGCGGCGTTTTTTTCTTAACACCGCGAATGACCACC
131 CCGTTTTACGAAAACTGAGAACAGAACCTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCACC
*
57122168 TTTG
196 TTTA
* *
57122172 GCGGCGTTTTTCCCTTAGCGCCACAAAACCCATTAAATTCGCAGCCAAAAACTGCACCGTTTTGT
1 GCGGCGTTTTTCCCTTAGCGACGCAAAACCCATTAAATTCGCAGCCAAAAACTGCACCGTTTTGT
*
57122237 CTTCATTATTAAGAATATTTTGTGGCGTTTTT
66 CTTCATTATTAAGAATATTTTGCGGCGTTTTT
57122269 GTTCAAAAAG
Statistics
Matches: 616, Mismatches: 64, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
192 168 0.27
193 1 0.00
198 1 0.00
199 446 0.72
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (199 bp):
GCGGCGTTTTTCCCTTAGCGACGCAAAACCCATTAAATTCGCAGCCAAAAACTGCACCGTTTTGT
CTTCATTATTAAGAATATTTTGCGGCGTTTTTTAGTAGCGCCACTAATGCCCAGGCAAAACGACA
CCGTTTTACGAAAACTGAGAACAGAACCTTGCGGCGTTTTTTCCTTAGCGCCGCTAATGACCACC
TTTA
Found at i:57122451 original size:46 final size:47
Alignment explanation
Indices: 57122385--57122480 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 47
57122375 CATAGTTTTG
* * **
57122385 TTTAGGTAATATTTATAAAAATTAGATAAAATTATCAATTTTAGT-T
1 TTTAAGTAATATTTATAAAAATTAGATAAAACTAAAAATTTTAGTGT
* *
57122431 TTTAAGTAGTATTTATAAAAATTAGGTAAAACTAAAAATTTTAGTGT
1 TTTAAGTAATATTTATAAAAATTAGATAAAACTAAAAATTTTAGTGT
57122478 TTT
1 TTT
57122481 TATTTCTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
46 39 0.91
47 4 0.09
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (47 bp):
TTTAAGTAATATTTATAAAAATTAGATAAAACTAAAAATTTTAGTGT
Found at i:57122507 original size:9 final size:9
Alignment explanation
Indices: 57122495--57122543 Score: 73
Period size: 9 Copynumber: 5.4 Consensus size: 9
57122485 TCTTTTTTAT
*
57122495 TTTTTATAA
1 TTTTTACAA
57122504 TTTTTACAA
1 TTTTTACAA
57122513 TTTTTTACAA
1 -TTTTTACAA
57122523 -TTTTACAA
1 TTTTTACAA
57122531 TTTTTACAA
1 TTTTTACAA
57122540 TTTT
1 TTTT
57122544 AAATTATTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
8 8 0.22
9 20 0.54
10 9 0.24
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTTACAA
Found at i:57122515 original size:19 final size:18
Alignment explanation
Indices: 57122493--57122548 Score: 80
Period size: 17 Copynumber: 3.2 Consensus size: 18
57122483 TTTCTTTTTT
*
57122493 ATTTTTTATAATTTTTACA
1 ATTTTTTACAA-TTTTACA
57122512 ATTTTTTACAATTTTACA
1 ATTTTTTACAATTTTACA
57122530 A-TTTTTACAATTTTA-A
1 ATTTTTTACAATTTTACA
57122546 ATT
1 ATT
57122549 ATTATATTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
16 2 0.06
17 15 0.43
18 8 0.23
19 10 0.29
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTTTACAATTTTACA
Found at i:57122544 original size:8 final size:8
Alignment explanation
Indices: 57122505--57122548 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
57122495 TTTTTATAAT
57122505 TTTTACAA
1 TTTTACAA
57122513 TTTTTTACAA
1 --TTTTACAA
57122523 TTTTACAA
1 TTTTACAA
57122531 TTTTTACAA
1 -TTTTACAA
57122540 TTTTA-AA
1 TTTTACAA
57122547 TT
1 TT
57122549 ATTATATTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 4 0.12
8 13 0.39
9 8 0.24
10 8 0.24
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (8 bp):
TTTTACAA
Found at i:57122562 original size:21 final size:20
Alignment explanation
Indices: 57122537--57122591 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 20
57122527 ACAATTTTTA
57122537 CAATTTTAAATTATT-ATATT
1 CAATTTTAAATTATTCATA-T
*
57122557 CAAATTATTATA-TATTGCATAT
1 C-AATT-TTAAATTATT-CATAT
57122579 CAATTTTAAATTA
1 CAATTTTAAATTA
57122592 ATAATCTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
20 5 0.18
21 14 0.50
22 6 0.21
23 3 0.11
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (20 bp):
CAATTTTAAATTATTCATAT
Found at i:57122745 original size:89 final size:84
Alignment explanation
Indices: 57122640--57122897 Score: 290
Period size: 83 Copynumber: 3.0 Consensus size: 84
57122630 TATAAAGAAC
57122640 TTATTTAATATATAAATTAAAAAGTACTAATTAATCCAAATCTTAAACCCTAACCCGACCCCAAA
1 TTATTTAATATATAAATTAAAAA-TA-TAATTAAT-CAAATC-TAAACCCTAACCCGACCCCAAA
57122705 TCCCTAACCTCTAACCCCTAAACT
62 TCCCTAACC-CTAACCCCTAAACT
* *
57122729 TTATTTAATATATAAATTAAAAA-AT-AGTAAT-TAATCTAAACCCTAAACCCGACCCCAAATCC
1 TTATTTAATATATAAATTAAAAATATAATTAATCAAATCTAAACCCT-AACCCGACCCCAAATCC
* *
57122791 CTAACCCCTAACACTTAAACT
65 CTAA-CCCTAACCCCTAAACT
* * * **
57122812 TTATTTAATATATAAATTAAAAAATAGTAATTAATCTAAACCCTAAACCATAACCC-AGTCCTGA
1 TTATTTAATATATAAATT-AAAAATA-TAATTAATC-AAA-TCTAAACCCTAACCCGA-CCCCAA
57122876 ATCCCTAACCCTTAACCCCTAA
61 ATCCCTAACCC-TAACCCCTAA
57122898 CCTCTAACCC
Statistics
Matches: 145, Mismatches: 13, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
82 8 0.06
83 55 0.38
84 7 0.05
85 6 0.04
86 2 0.01
87 6 0.04
88 4 0.03
89 49 0.34
90 8 0.06
ACGTcount: A:0.43, C:0.26, G:0.03, T:0.28
Consensus pattern (84 bp):
TTATTTAATATATAAATTAAAAATATAATTAATCAAATCTAAACCCTAACCCGACCCCAAATCCC
TAACCCTAACCCCTAAACT
Found at i:57122811 original size:83 final size:83
Alignment explanation
Indices: 57122640--57122860 Score: 327
Period size: 83 Copynumber: 2.6 Consensus size: 83
57122630 TATAAAGAAC
* *
57122640 TTATTTAATATATAAATTAAAAAGTACTAATTAATCCAAATCTTAAACCCT-AACCCGACCCCAA
1 TTATTTAATATATAAATTAAAAA--A-T-AGTAAT--TAATC-TAAACCCTAAACCCGACCCCAA
* *
57122704 ATCCCTAACCTCTAACCCCTAAACT
59 ATCCCTAACCCCTAACACCTAAACT
57122729 TTATTTAATATATAAATTAAAAAATAGTAATTAATCTAAACCCTAAACCCGACCCCAAATCCCTA
1 TTATTTAATATATAAATTAAAAAATAGTAATTAATCTAAACCCTAAACCCGACCCCAAATCCCTA
*
57122794 ACCCCTAACACTTAAACT
66 ACCCCTAACACCTAAACT
57122812 TTATTTAATATATAAATTAAAAAATAGTAATTAATCTAAACCCTAAACC
1 TTATTTAATATATAAATTAAAAAATAGTAATTAATCTAAACCCTAAACC
57122861 ATAACCCAGT
Statistics
Matches: 126, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
82 8 0.06
83 88 0.70
85 5 0.04
86 1 0.01
87 1 0.01
89 23 0.18
ACGTcount: A:0.45, C:0.24, G:0.02, T:0.29
Consensus pattern (83 bp):
TTATTTAATATATAAATTAAAAAATAGTAATTAATCTAAACCCTAAACCCGACCCCAAATCCCTA
ACCCCTAACACCTAAACT
Found at i:57122893 original size:7 final size:7
Alignment explanation
Indices: 57122878--57122911 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
57122868 AGTCCTGAAT
57122878 CCCTAAC
1 CCCTAAC
*
57122885 CCTTAAC
1 CCCTAAC
57122892 CCCTAAC
1 CCCTAAC
*
57122899 CTCTAAC
1 CCCTAAC
57122906 CCCTAA
1 CCCTAA
57122912 ACATTATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.29, C:0.50, G:0.00, T:0.21
Consensus pattern (7 bp):
CCCTAAC
Found at i:57122979 original size:102 final size:104
Alignment explanation
Indices: 57122789--57123001 Score: 272
Period size: 102 Copynumber: 2.1 Consensus size: 104
57122779 GACCCCAAAT
* * * *
57122789 CCCTAACCCCTAACACTTAAACTTTATTTAATATATAAATTAAAAAATAGTAATTAATCTAAACC
1 CCCTAACCCCTAACACCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACC
* *
57122854 CTAAACCATAACCCAGTCCTGAATCCCTAA-CCCTTAAC
66 CTAAACCATAACCCAGACCTGAATCCCTAAGCCCTAAAC
* * *
57122892 CCCTAACCTCTAACCCCTAAACATTATTTAATATAT-AATTAAAATACACTAATTAATCTAAACC
1 CCCTAACCCCTAACACCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACC
* * *
57122956 CTAAACTC-TAACCTA-ACATTGAATCCCTAAGCCCTAAAT
66 CTAAAC-CATAACCCAGAC-CTGAATCCCTAAGCCCTAAAC
57122995 CCCTAAC
1 CCCTAAC
57123002 TCTTAACATC
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
101 1 0.01
102 48 0.51
103 46 0.48
ACGTcount: A:0.41, C:0.28, G:0.02, T:0.28
Consensus pattern (104 bp):
CCCTAACCCCTAACACCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACC
CTAAACCATAACCCAGACCTGAATCCCTAAGCCCTAAAC
Found at i:57123001 original size:103 final size:103
Alignment explanation
Indices: 57122780--57123001 Score: 279
Period size: 103 Copynumber: 2.2 Consensus size: 103
57122770 CCTAAACCCG
* * * * *
57122780 ACCCCAAATCCCTAACCCCTAACACTTAAACTTTATTTAATATATAAATTAAAAAATAGTAATTA
1 ACCCTAAATCCCTAACCCCTAACACCTAAACATTATTTAATATATAAATTAAAAAACACTAATTA
*
57122845 ATCTAAACCCTAAACCATAACCCAGTCCTGAATCCCTA
66 ATCTAAACCCTAAACCATAACCCAGACCTGAATCCCTA
* * * * *
57122883 ACCCTTAACCCCTAACCTCTAACCCCTAAACATTATTTAATATAT-AATTAAAATACACTAATTA
1 ACCCTAAATCCCTAACCCCTAACACCTAAACATTATTTAATATATAAATTAAAAAACACTAATTA
* *
57122947 ATCTAAACCCTAAACTC-TAACCTA-ACATTGAATCCCTA
66 ATCTAAACCCTAAAC-CATAACCCAGAC-CTGAATCCCTA
57122985 AGCCCTAAATCCCTAAC
1 A-CCCTAAATCCCTAAC
57123002 TCTTAACATC
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
101 1 0.01
102 48 0.48
103 52 0.51
ACGTcount: A:0.41, C:0.29, G:0.02, T:0.27
Consensus pattern (103 bp):
ACCCTAAATCCCTAACCCCTAACACCTAAACATTATTTAATATATAAATTAAAAAACACTAATTA
ATCTAAACCCTAAACCATAACCCAGACCTGAATCCCTA
Found at i:57123032 original size:26 final size:26
Alignment explanation
Indices: 57122996--57123049 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
57122986 GCCCTAAATC
* *
57122996 CCTAACTCTTAACATCTAACCCCTAA
1 CCTAACCCTTAACACCTAACCCCTAA
* *
57123022 CCTAACCCTTAACCCCTAACCCTTAA
1 CCTAACCCTTAACACCTAACCCCTAA
57123048 CC
1 CC
57123050 CATAAACCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.44, G:0.00, T:0.24
Consensus pattern (26 bp):
CCTAACCCTTAACACCTAACCCCTAA
Found at i:57123050 original size:14 final size:14
Alignment explanation
Indices: 57122980--57123061 Score: 69
Period size: 14 Copynumber: 5.9 Consensus size: 14
57122970 AACATTGAAT
* *
57122980 CCCTAAGCCCTAAAT
1 CCCTAA-CCCTTAAC
*
57122995 CCCTAACTCTTAAC
1 CCCTAACCCTTAAC
** *
57123009 ATCTAACCCCTAA-
1 CCCTAACCCTTAAC
57123022 -CCTAACCCTTAAC
1 CCCTAACCCTTAAC
57123035 CCCTAACCCTTAAC
1 CCCTAACCCTTAAC
* *
57123049 CCATAAACCTTAA
1 CCCTAACCCTTAA
57123062 ATCACATTAA
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
12 10 0.19
14 38 0.70
15 6 0.11
ACGTcount: A:0.34, C:0.41, G:0.01, T:0.23
Consensus pattern (14 bp):
CCCTAACCCTTAAC
Found at i:57123078 original size:7 final size:7
Alignment explanation
Indices: 57123012--57123061 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
57123002 TCTTAACATC
*
57123012 TAACCCC
1 TAACCCT
57123019 TAA-CC-
1 TAACCCT
57123024 TAACCCT
1 TAACCCT
*
57123031 TAACCCC
1 TAACCCT
57123038 TAACCCT
1 TAACCCT
*
57123045 TAACCCA
1 TAACCCT
*
57123052 TAAACCT
1 TAACCCT
57123059 TAA
1 TAA
57123062 ATCACATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
5 3 0.08
6 4 0.11
7 29 0.81
ACGTcount: A:0.36, C:0.42, G:0.00, T:0.22
Consensus pattern (7 bp):
TAACCCT
Found at i:57123103 original size:14 final size:15
Alignment explanation
Indices: 57123084--57123116 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
57123074 CTTAAATCAG
57123084 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
57123098 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
57123113 AATC
1 AATC
57123117 TATAAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:57123869 original size:114 final size:114
Alignment explanation
Indices: 57123664--57124218 Score: 864
Period size: 114 Copynumber: 4.9 Consensus size: 114
57123654 TAAATTATTT
* * * * *
57123664 TAAATCCCTGAGCATTAGTGGCGCTTACTTAAAAACGCCACTAAATCCCTGAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCAGTAAATCCCCGAAAGCTCAGAAAAC
57123729 GGCGTCGTTGGGCTTAGGTATTTTTGTGGCGCTTTCCCAAAAACGCCGC
66 GGCGTCGTTGGGCTTAGGTATTTTTGTGGCGCTTTCCCAAAAACGCCGC
57123778 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCAGTAAATCCCCGAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCAGTAAATCCCCGAAAGCTCAGAAAAC
57123843 GGCGTCGTTGGGCTTAGGTATTTTTGTGGCGCTTTCCCAAAAACGCCGC
66 GGCGTCGTTGGGCTTAGGTATTTTTGTGGCGCTTTCCCAAAAACGCCGC
57123892 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCAGTAAATCCCCGAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCAGTAAATCCCCGAAAGCTCAGAAAAC
* * * * *
57123957 GGCGTCGTTGAGCTTAGGTATTTTTGCGGTGCTTTCCCAAAACCGCCAC
66 GGCGTCGTTGGGCTTAGGTATTTTTGTGGCGCTTTCCCAAAAACGCCGC
* * * *
57124006 TAAAGACCTGAGCATTAGCGGCGCTTACCTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCAGTAAATCCCCGAAAGCTCAGAAAAC
* * * *
57124071 GACGTCGTTGGGCTTAGGTTTTTTTATGGCGCTTTCTCAAAAACGCCGC
66 GGCGTCGTTGGGCTTAGGTATTTTTGTGGCGCTTTCCCAAAAACGCCGC
* * *
57124120 TAAAGCCTTGTGCACTAGCGGCGCTTTCTTAAAAACGCC-GCTAAATCCCCGAAAGCTC-GAAAA
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCAG-TAAATCCCCGAAAGCTCAG-AAA
* *
57124183 ACGGCGTCATTGGGCTTAGGTA-TTTTGCGGCGCTTT
64 ACGGCGTCGTTGGGCTTAGGTATTTTTGTGGCGCTTT
57124219 TTGGAAAACG
Statistics
Matches: 404, Mismatches: 35, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
113 13 0.03
114 391 0.97
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.25
Consensus pattern (114 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCAGTAAATCCCCGAAAGCTCAGAAAAC
GGCGTCGTTGGGCTTAGGTATTTTTGTGGCGCTTTCCCAAAAACGCCGC
Found at i:57125171 original size:23 final size:21
Alignment explanation
Indices: 57125112--57125171 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
57125102 CTCAAATCTA
*
57125112 TTAAT-TTGATTTAAATTTAT
1 TTAATATTGATTTAAAATTAT
* *
57125132 TTAGTAGTGCATTTAAAATTAT
1 TTAATATTG-ATTTAAAATTAT
57125154 TATAATATTGATTCTAAA
1 T-TAATATTGATT-TAAA
57125172 TTGTAGTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 4 0.13
21 2 0.06
22 15 0.48
23 10 0.32
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.50
Consensus pattern (21 bp):
TTAATATTGATTTAAAATTAT
Found at i:57125384 original size:31 final size:30
Alignment explanation
Indices: 57125325--57125385 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
57125315 TTGAAATGTT
*
57125325 ACATTTTAGTCACTTACGTTATCGTGTCGTA
1 ACATTTTAGTCACTAACGTTATC-TGTCGTA
57125356 ACATTTTAGTCACTAAGCGTTAAT-TGTCGT
1 ACATTTTAGTCACTAA-CGTT-ATCTGTCGT
57125386 TAACGGTGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 21 0.78
32 4 0.15
33 2 0.07
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (30 bp):
ACATTTTAGTCACTAACGTTATCTGTCGTA
Found at i:57125519 original size:18 final size:17
Alignment explanation
Indices: 57125481--57125518 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
57125471 TTTTTTTTCA
57125481 TTTTGAACAATTTAATT
1 TTTTGAACAATTTAATT
57125498 TTTTGAACAATTTAATT
1 TTTTGAACAATTTAATT
57125515 TTTT
1 TTTT
57125519 TTCTTTTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (17 bp):
TTTTGAACAATTTAATT
Found at i:57125589 original size:22 final size:22
Alignment explanation
Indices: 57125564--57125627 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 22
57125554 AATAGAGGGA
* * *
57125564 AAAGTAGAAGAGAATAGAAAAT
1 AAAGAAGAAGAAAAAAGAAAAT
*
57125586 AAAGAAGAAGAAAAAAGAAAGT
1 AAAGAAGAAGAAAAAAGAAAAT
* * *
57125608 TAA-AAGAACATAAAAGAAAA
1 AAAGAAGAAGAAAAAAGAAAA
57125628 AAATTAAATT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
21 14 0.41
22 20 0.59
ACGTcount: A:0.70, C:0.02, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAGAAGAAGAAAAAAGAAAAT
Found at i:57130689 original size:42 final size:42
Alignment explanation
Indices: 57130643--57130881 Score: 259
Period size: 42 Copynumber: 5.7 Consensus size: 42
57130633 TCTAAAGCTG
* * * *
57130643 AACAGAAGCTCGTAAAAGCTAAACAGAAAC-CTATAAGGGTTG
1 AACAGAAGCTCATAAAAGCTGAACAGAAACTC-ATAAGAGTTA
* *
57130685 AACAGAAGCTCATAAGAGCTGAACAGAAACTCATAAGGGTTA
1 AACAGAAGCTCATAAAAGCTGAACAGAAACTCATAAGAGTTA
* *
57130727 AACAGAAGCTCA-AAAGAGCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAA-AGCTGAACAGAAACTCATAAGAGTTA
* * *
57130769 AATAGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCATAAAAGCTGAACAGAAACTCATAAGAGTTA
* * * *
57130811 AATAGAAGCTCGA-AAGAGCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTC-ATAAAAGCTGAACAGAAACTCATAAGAGTTA
* * * *
57130853 AATAGAAGATCATAAGAGCTAAACAGAAA
1 AACAGAAGCTCATAAAAGCTGAACAGAAA
57130882 GTAAAACACG
Statistics
Matches: 173, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
41 3 0.02
42 166 0.96
43 4 0.02
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTCATAAAAGCTGAACAGAAACTCATAAGAGTTA
Found at i:57130776 original size:84 final size:84
Alignment explanation
Indices: 57130688--57130881 Score: 334
Period size: 84 Copynumber: 2.3 Consensus size: 84
57130678 AGGGTTGAAC
*
57130688 AGAAGCTCATAAGAGCTGAACAGAAACTCATAAGGGTTAAACAGAAGCTCAAAAGAGCTGAACGG
1 AGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTAAACAGAAGCTCAAAAGAGCTGAACGG
57130753 AAACTCATATGAGTTAAAT
66 AAACTCATATGAGTTAAAT
* * *
57130772 AGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTGAATAGAAGCTCGAAAGAGCTGAACGG
1 AGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTAAACAGAAGCTCAAAAGAGCTGAACGG
57130837 AAACTCATATGAGTTAAAT
66 AAACTCATATGAGTTAAAT
* *
57130856 AGAAGATCATAAGAGCTAAACAGAAA
1 AGAAGCTCATAAGAGCTGAACAGAAA
57130882 GTAAAACACG
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 104 1.00
ACGTcount: A:0.46, C:0.14, G:0.22, T:0.18
Consensus pattern (84 bp):
AGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTAAACAGAAGCTCAAAAGAGCTGAACGG
AAACTCATATGAGTTAAAT
Found at i:57130875 original size:21 final size:21
Alignment explanation
Indices: 57130624--57130880 Score: 143
Period size: 21 Copynumber: 12.3 Consensus size: 21
57130614 GTACATCATT
*
57130624 AACAGAAGCTC-TAA-AGCTG
1 AACAGAAGATCATAAGAGCTG
* * * *
57130643 AACAGAAGCTCGTAAAAGCTA
1 AACAGAAGATCATAAGAGCTG
* * *
57130664 AACAGAA-ACCTATAAGGGTTG
1 AACAGAAGATC-ATAAGAGCTG
*
57130685 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGATCATAAGAGCTG
* * *
57130706 AACAGAA-ACTCATAAGGGTTA
1 AACAGAAGA-TCATAAGAGCTG
* *
57130727 AACAGAAGCTCAAAAGAGCTG
1 AACAGAAGATCATAAGAGCTG
* * * *
57130748 AACGGAA-ACTCATATGAGTTA
1 AACAGAAGA-TCATAAGAGCTG
* *
57130769 AATAGAAGCTCATAAGAGCTG
1 AACAGAAGATCATAAGAGCTG
*
57130790 AACAGAA-ACTCATAAGAGTTG
1 AACAGAAGA-TCATAAGAGCTG
* *
57130811 AATAGAAGCTCGA-AAGAGCTG
1 AACAGAAGATC-ATAAGAGCTG
* * * *
57130832 AACGGAA-ACTCATATGAGTTA
1 AACAGAAGA-TCATAAGAGCTG
* *
57130853 AATAGAAGATCATAAGAGCTA
1 AACAGAAGATCATAAGAGCTG
57130874 AACAGAA
1 AACAGAA
57130881 AGTAAAACAC
Statistics
Matches: 174, Mismatches: 50, Indels: 26
0.70 0.20 0.10
Matches are distributed among these distances:
19 11 0.06
20 5 0.03
21 155 0.89
22 3 0.02
ACGTcount: A:0.46, C:0.16, G:0.21, T:0.17
Consensus pattern (21 bp):
AACAGAAGATCATAAGAGCTG
Found at i:57132917 original size:21 final size:21
Alignment explanation
Indices: 57132893--57132937 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
57132883 CTACCCGTAG
57132893 AACT-AGGAGTTCTACCGATAC
1 AACTCAGG-GTTCTACCGATAC
*
57132914 AACTCTGGGTTCTACCGATAC
1 AACTCAGGGTTCTACCGATAC
57132935 AAC
1 AAC
57132938 CCAGACTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (21 bp):
AACTCAGGGTTCTACCGATAC
Found at i:57132947 original size:21 final size:21
Alignment explanation
Indices: 57132902--57132948 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
57132892 GAACTAGGAG
* * **
57132902 TTCTACCGATACAACTCTGGG
1 TTCTACCGATACAACCCAGAC
57132923 TTCTACCGATACAACCCAGAC
1 TTCTACCGATACAACCCAGAC
57132944 TTCTA
1 TTCTA
57132949 TCAATAGAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.28
Consensus pattern (21 bp):
TTCTACCGATACAACCCAGAC
Found at i:57133158 original size:71 final size:71
Alignment explanation
Indices: 57133037--57133204 Score: 223
Period size: 71 Copynumber: 2.4 Consensus size: 71
57133027 AACCAAAGTG
* * *
57133037 CTACTGATACCTTGAAGACTTCTACCAAGACAAGTCAAGTCAATAGCCAAAGTTCAACAT-CTCC
1 CTACCGATACCTTGAGGACTTCTACCAAAACAAGTCAAGTCAATAGCCAAAGTTCAACATCCT-C
*
57133101 TGCACTT
65 TACACTT
* *
57133108 CTACCGATACCTTGAGGACTTCTACCAAAACAAGTCAAGTCAATAGCCAAAGTTTAGCATCCTCT
1 CTACCGATACCTTGAGGACTTCTACCAAAACAAGTCAAGTCAATAGCCAAAGTTCAACATCCTCT
57133173 ACACTT
66 ACACTT
* * *
57133179 TTATCGATACTTTGATGGA-TTCTACC
1 CTACCGATACCTTGA-GGACTTCTACC
57133205 GATACCAAAT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
71 81 0.94
72 5 0.06
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (71 bp):
CTACCGATACCTTGAGGACTTCTACCAAAACAAGTCAAGTCAATAGCCAAAGTTCAACATCCTCT
ACACTT
Found at i:57135640 original size:27 final size:27
Alignment explanation
Indices: 57135610--57135664 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
57135600 AAGCTCCACC
**
57135610 AGTAGAGTTCCCACACAAAATTTCTCA
1 AGTAGAGCCCCCACACAAAATTTCTCA
57135637 AGTAGAGCCCCCACACAAAATTTCTCA
1 AGTAGAGCCCCCACACAAAATTTCTCA
57135664 A
1 A
57135665 TCTCTTTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.29, G:0.11, T:0.22
Consensus pattern (27 bp):
AGTAGAGCCCCCACACAAAATTTCTCA
Found at i:57138129 original size:7 final size:6
Alignment explanation
Indices: 57138107--57138178 Score: 58
Period size: 6 Copynumber: 11.5 Consensus size: 6
57138097 GAAGTTTAAG
* *
57138107 AAAATA AAAATAA AAAACTA AAAACT- AAAATA AAAAGA AACATA AAAATA
1 AAAATA AAAAT-A AAAA-TA AAAA-TA AAAATA AAAATA AAAATA AAAATA
*
57138157 AAAA-A GAAAACTA AAAAGA AAA
1 AAAATA -AAAA-TA AAAATA AAA
57138179 CAAATAAAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
5 2 0.04
6 35 0.64
7 16 0.29
8 2 0.04
ACGTcount: A:0.79, C:0.06, G:0.04, T:0.11
Consensus pattern (6 bp):
AAAATA
Found at i:57139870 original size:21 final size:20
Alignment explanation
Indices: 57139839--57139895 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 20
57139829 AAAAAACCAG
*
57139839 AATAATAAAATAAATTAAAAT
1 AATAA-AAAATAAATGAAAAT
57139860 AATAAAGAAATTAAA-GAAAAT
1 AATAAA-AAA-TAAATGAAAAT
57139881 AATAAAATAATAAAT
1 AATAAAA-AATAAAT
57139896 AATTAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
20 6 0.19
21 21 0.68
22 4 0.13
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (20 bp):
AATAAAAAATAAATGAAAAT
Found at i:57139872 original size:17 final size:18
Alignment explanation
Indices: 57139839--57139874 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
57139829 AAAAAACCAG
*
57139839 AATAATAAAATAAATTAA
1 AATAATAAAAGAAATTAA
57139857 AATAAT-AAAGAAATTAA
1 AATAATAAAAGAAATTAA
57139874 A
1 A
57139875 GAAAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (18 bp):
AATAATAAAAGAAATTAA
Found at i:57139890 original size:29 final size:30
Alignment explanation
Indices: 57139845--57139902 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
57139835 CCAGAATAAT
57139845 AAAATAAATTAAAATAATAAAGAAATTAAAG
1 AAAATAAATTAAAATAATAAA-AAATTAAAG
*
57139876 AAAAT-AA-TAAAATAATAAATAATTAAA
1 AAAATAAATTAAAATAATAAAAAATTAAA
57139903 AATAGGGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 7 0.27
29 12 0.46
30 2 0.08
31 5 0.19
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (30 bp):
AAAATAAATTAAAATAATAAAAAATTAAAG
Found at i:57151993 original size:20 final size:21
Alignment explanation
Indices: 57151958--57151999 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
57151948 TTGTACTTTT
57151958 TGAGTTAGTAAAAAAAATTCA
1 TGAGTTAGTAAAAAAAATTCA
57151979 TGAGTTAGT-AAAAAAATTCA
1 TGAGTTAGTAAAAAAAATTCA
57151999 T
1 T
57152000 TTATTCAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.31
Consensus pattern (21 bp):
TGAGTTAGTAAAAAAAATTCA
Found at i:57158987 original size:37 final size:37
Alignment explanation
Indices: 57158935--57159021 Score: 149
Period size: 37 Copynumber: 2.4 Consensus size: 37
57158925 ACAAAAGTAG
*
57158935 TCCAACCGA-AACATGCCAAATGCTCATGAGAGCTAA
1 TCCAACCGATAACATGCCAAATGCTCATAAGAGCTAA
*
57158971 TCTAACCGATAACATGCCAAATGCTCATAAGAGCTAA
1 TCCAACCGATAACATGCCAAATGCTCATAAGAGCTAA
57159008 TCCAACCGATAACA
1 TCCAACCGATAACA
57159022 CCCCTCGACA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
36 8 0.17
37 39 0.83
ACGTcount: A:0.40, C:0.28, G:0.14, T:0.18
Consensus pattern (37 bp):
TCCAACCGATAACATGCCAAATGCTCATAAGAGCTAA
Found at i:57162620 original size:47 final size:46
Alignment explanation
Indices: 57162553--57162654 Score: 116
Period size: 47 Copynumber: 2.2 Consensus size: 46
57162543 GTGGTTTAAC
*
57162553 CACATATCTGTTCTGGCAGCTTGACT-GCAATTATAATGGTTCGACCA
1 CACATATCTGTTCTGACAGCTTG-CTCGCAA-TATAATGGTTCGACCA
* * * * *
57162600 CACATATTTGTTTTGACAGCTTGGTCGCAATATAGTGGTTTGACCA
1 CACATATCTGTTCTGACAGCTTGCTCGCAATATAATGGTTCGACCA
*
57162646 CATATATCT
1 CACATATCT
57162655 AATCTGGCAA
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
46 22 0.48
47 24 0.52
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (46 bp):
CACATATCTGTTCTGACAGCTTGCTCGCAATATAATGGTTCGACCA
Found at i:57166899 original size:91 final size:91
Alignment explanation
Indices: 57166744--57167105 Score: 706
Period size: 91 Copynumber: 4.0 Consensus size: 91
57166734 TAATCTCGTT
*
57166744 TAAGTTATTAGCTACAGGATAAACAACAGTATGGTTTGAACGTGAGACATGTTAACATAAAAAAT
1 TAAGTTCTTAGCTACAGGATAAACAACAGTATGGTTTGAACGTGAGACATGTTAACATAAAAAAT
57166809 AAAGAAATACATGTGTCAGGGCACTC
66 AAAGAAATACATGTGTCAGGGCACTC
57166835 TAAGTTCTTAGCTACAGGATAAACAACAGTATGGTTTGAACGTGAGACATGTTAACATAAAAAAT
1 TAAGTTCTTAGCTACAGGATAAACAACAGTATGGTTTGAACGTGAGACATGTTAACATAAAAAAT
57166900 AAAGAAATACATGTGTCAGGGCACTC
66 AAAGAAATACATGTGTCAGGGCACTC
57166926 TAAGTTCTTAGCTACAGGATAAACAACAGTATGGTTTGAACGTGAGACATGTTAACATAAAAAAT
1 TAAGTTCTTAGCTACAGGATAAACAACAGTATGGTTTGAACGTGAGACATGTTAACATAAAAAAT
57166991 AAAGAAATACATGTGTCAGGGCACTC
66 AAAGAAATACATGTGTCAGGGCACTC
57167017 TAAGTTCTTAGCTACAGGATAAACAACAGTATGGTTTGAACGTGAGACATGTTAACATAAAAAAT
1 TAAGTTCTTAGCTACAGGATAAACAACAGTATGGTTTGAACGTGAGACATGTTAACATAAAAAAT
*
57167082 AAAGAAATACATGTGTTAGGGCAC
66 AAAGAAATACATGTGTCAGGGCAC
57167106 AACAAAGAGC
Statistics
Matches: 269, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 269 1.00
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (91 bp):
TAAGTTCTTAGCTACAGGATAAACAACAGTATGGTTTGAACGTGAGACATGTTAACATAAAAAAT
AAAGAAATACATGTGTCAGGGCACTC
Found at i:57167805 original size:25 final size:26
Alignment explanation
Indices: 57167777--57167856 Score: 100
Period size: 25 Copynumber: 3.3 Consensus size: 26
57167767 ATTCTATTTG
57167777 GCCTTTGTGGTGTATCT-TGTATGTT
1 GCCTTTGTGGTGTATCTCTGTATGTT
* *
57167802 GCCTTTGTGGCGTA-CTCTG-A--TA
1 GCCTTTGTGGTGTATCTCTGTATGTT
57167824 GCCTTTGTGGTGTAT-TCTGTATGTT
1 GCCTTTGTGGTGTATCTCTGTATGTT
57167849 GCCTTTGT
1 GCCTTTGT
57167857 AGCGTAATCT
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
22 18 0.39
23 1 0.02
24 3 0.07
25 24 0.52
ACGTcount: A:0.09, C:0.16, G:0.28, T:0.47
Consensus pattern (26 bp):
GCCTTTGTGGTGTATCTCTGTATGTT
Found at i:57167830 original size:22 final size:22
Alignment explanation
Indices: 57167802--57167870 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
57167792 CTTGTATGTT
*
57167802 GCCTTTGTGGCGTACTCTGATA
1 GCCTTTGTGGCGTAATCTGATA
* * *
57167824 GCCTTTGTGGTGTATTCTGTATGTT
1 GCCTTTGTGGCGTAATCTG-A--TA
*
57167849 GCCTTTGTAGCGTAATCTGATA
1 GCCTTTGTGGCGTAATCTGATA
57167871 ATATTTGGGG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
22 18 0.49
23 1 0.03
24 1 0.03
25 17 0.46
ACGTcount: A:0.14, C:0.17, G:0.26, T:0.42
Consensus pattern (22 bp):
GCCTTTGTGGCGTAATCTGATA
Done.