Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 382 of 433
Found at i:119432586 original size:27 final size:27
Alignment explanation
Indices: 119432474--119432573 Score: 139
Period size: 27 Copynumber: 3.7 Consensus size: 27
119432464 TGTAAGGTAG
* * *
119432474 AATTACCAAAATACC-CTTTGTTTATAC
1 AATTACCAAAATACCTC-TAGTTTGTAA
* *
119432501 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCTCTAGTTTGTAA
119432528 AATTACCAAAATACCTCTAGTTTGTAA
1 AATTACCAAAATACCTCTAGTTTGTAA
119432555 AATTACCAAAATACCTCTA
1 AATTACCAAAATACCTCTA
119432574 ATTTTTGAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
27 66 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCTCTAGTTTGTAA
Found at i:119432596 original size:27 final size:27
Alignment explanation
Indices: 119432474--119432586 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
119432464 TGTAAGGTAG
** * *
119432474 AATTACCAAAATACC-CTTTGTTTATAC
1 AATTACCAAAATACCTC-TAATTTGTAA
* **
119432501 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCTCTAATTTGTAA
*
119432528 AATTACCAAAATACCTCTAGTTTGTAA
1 AATTACCAAAATACCTCTAATTTGTAA
* *
119432555 AATTACCAAAATACCTCTAATTTTTGA
1 AATTACCAAAATACCTCTAATTTGTAA
119432582 AATTA
1 AATTA
119432587 TTGAAATACC
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 76 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (27 bp):
AATTACCAAAATACCTCTAATTTGTAA
Found at i:119432611 original size:27 final size:27
Alignment explanation
Indices: 119432581--119432655 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
119432571 CTAATTTTTG
*
119432581 AAATTATTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
*
119432608 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
*
119432635 AAATTAC-CAAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
119432656 TTTACAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 3 0.07
27 41 0.93
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:119432836 original size:27 final size:27
Alignment explanation
Indices: 119432620--119432840 Score: 217
Period size: 27 Copynumber: 8.2 Consensus size: 27
119432610 ATTACTGAAA
* ** ***
119432620 TACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTACAAAATTACCATTT
*
119432647 TACCCTCGATTTACAAAATTATCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
119432674 TACCCTTGATTTACAAAATTATCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * ***
119432701 TACCCTTGATTTACAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
119432728 TACCCTCGATTTACAGAATTATCTTTT
1 TACCCTCGATTTACAAAATTACCATTT
** *
119432755 TACCCTTAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * *
119432782 TATCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
*
119432809 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
119432836 TACCC
1 TACCC
119432841 CCAGGGTGTT
Statistics
Matches: 164, Mismatches: 30, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 164 1.00
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:119433119 original size:27 final size:26
Alignment explanation
Indices: 119433075--119433126 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
119433065 CTCGCTGTAA
*
119433075 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
119433102 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
119433127 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:119433166 original size:2 final size:2
Alignment explanation
Indices: 119433159--119433202 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
119433149 GCTTCGCCAC
119433159 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
119433201 AT
1 AT
119433203 CTGTTCTGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:119433412 original size:31 final size:31
Alignment explanation
Indices: 119433378--119433449 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 31
119433368 TGCATTCACA
* *
119433378 TTCTGATT-TTGATTCTGTTACCTGATAT-TGA
1 TTCTGATTCTT-ATTCTATCACCTGAT-TCTGA
119433409 TTCTGATTCTTATTCTATCACCTGATTCTGA
1 TTCTGATTCTTATTCTATCACCTGATTCTGA
119433440 TTCTGATTCT
1 TTCTGATTCT
119433450 AGTTCTGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 1 0.03
31 34 0.92
32 2 0.05
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.51
Consensus pattern (31 bp):
TTCTGATTCTTATTCTATCACCTGATTCTGA
Found at i:119433415 original size:6 final size:6
Alignment explanation
Indices: 119433377--119433458 Score: 55
Period size: 6 Copynumber: 13.3 Consensus size: 6
119433367 TTGCATTCAC
* *
119433377 ATTCTG ATTTTG ATTCTG -TTACCTG ATAT-TG ATTCTG ATTCTT ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG ATTCTG ATTCTG
*
119433425 ATCACCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
119433459 AATGTTTCTT
Statistics
Matches: 61, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
5 6 0.10
6 45 0.74
7 6 0.10
8 3 0.05
9 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:119435740 original size:54 final size:54
Alignment explanation
Indices: 119435629--119435741 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 54
119435619 TGTAAGGTAG
* * **
119435629 AATTACCAAAATACCCTTTGTTTATACAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTAATTTGTAA
* * * *
119435683 AATTACCAAAATA-CCTCTAGTTTGTAAAATTACCAAAATACCTCTAATTTTTGA
1 AATTACCAAAATACCCT-TAGTTTATAAAATTACCAAAATACCCCTAATTTGTAA
119435737 AATTA
1 AATTA
119435742 TTGAAATACC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
53 3 0.06
54 47 0.94
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (54 bp):
AATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTAATTTGTAA
Found at i:119435741 original size:27 final size:27
Alignment explanation
Indices: 119435629--119435728 Score: 139
Period size: 27 Copynumber: 3.7 Consensus size: 27
119435619 TGTAAGGTAG
* * *
119435629 AATTACCAAAATACC-CTTTGTTTATAC
1 AATTACCAAAATACCTC-TAGTTTGTAA
* *
119435656 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCTCTAGTTTGTAA
119435683 AATTACCAAAATACCTCTAGTTTGTAA
1 AATTACCAAAATACCTCTAGTTTGTAA
119435710 AATTACCAAAATACCTCTA
1 AATTACCAAAATACCTCTA
119435729 ATTTTTGAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
27 66 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCTCTAGTTTGTAA
Found at i:119435751 original size:27 final size:27
Alignment explanation
Indices: 119435629--119435741 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
119435619 TGTAAGGTAG
** * *
119435629 AATTACCAAAATACC-CTTTGTTTATAC
1 AATTACCAAAATACCTC-TAATTTGTAA
* **
119435656 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCTCTAATTTGTAA
*
119435683 AATTACCAAAATACCTCTAGTTTGTAA
1 AATTACCAAAATACCTCTAATTTGTAA
* *
119435710 AATTACCAAAATACCTCTAATTTTTGA
1 AATTACCAAAATACCTCTAATTTGTAA
119435737 AATTA
1 AATTA
119435742 TTGAAATACC
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 76 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (27 bp):
AATTACCAAAATACCTCTAATTTGTAA
Found at i:119435766 original size:27 final size:27
Alignment explanation
Indices: 119435736--119435810 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
119435726 CTAATTTTTG
*
119435736 AAATTATTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
*
119435763 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
*
119435790 AAATTAC-CAAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
119435811 TTTACAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 3 0.07
27 41 0.93
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:119435991 original size:27 final size:27
Alignment explanation
Indices: 119435775--119435995 Score: 226
Period size: 27 Copynumber: 8.2 Consensus size: 27
119435765 ATTACTGAAA
* ** ***
119435775 TACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTACAAAATTACCATTT
*
119435802 TACCCTCGATTTACAAAATTATCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
119435829 TACCCTTGATTTACAAAATTATCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * **
119435856 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
119435883 TACCCTCGATTTACAGAATTATCTTTT
1 TACCCTCGATTTACAAAATTACCATTT
** *
119435910 TACCCTTAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * *
119435937 TATCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
*
119435964 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
119435991 TACCC
1 TACCC
119435996 CCAGGGTGTT
Statistics
Matches: 162, Mismatches: 32, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 162 1.00
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:119436274 original size:27 final size:26
Alignment explanation
Indices: 119436230--119436281 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
119436220 CTCGCTGTAA
*
119436230 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
119436257 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
119436282 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:119436539 original size:31 final size:31
Alignment explanation
Indices: 119436505--119436576 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 31
119436495 TGCATTCACA
* *
119436505 TTCTGATT-TTGATTCTGTTACCTGATAT-TGA
1 TTCTGATTCTT-ATTCTATCACCTGAT-TCTGA
119436536 TTCTGATTCTTATTCTATCACCTGATTCTGA
1 TTCTGATTCTTATTCTATCACCTGATTCTGA
119436567 TTCTGATTCT
1 TTCTGATTCT
119436577 AGTTCTGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 1 0.03
31 34 0.92
32 2 0.05
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.51
Consensus pattern (31 bp):
TTCTGATTCTTATTCTATCACCTGATTCTGA
Found at i:119436542 original size:6 final size:6
Alignment explanation
Indices: 119436504--119436585 Score: 55
Period size: 6 Copynumber: 13.3 Consensus size: 6
119436494 TTGCATTCAC
* *
119436504 ATTCTG ATTTTG ATTCTG -TTACCTG ATAT-TG ATTCTG ATTCTT ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG ATTCTG ATTCTG
*
119436552 ATCACCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
119436586 AATGTTTCTT
Statistics
Matches: 61, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
5 6 0.10
6 45 0.74
7 6 0.10
8 3 0.05
9 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:119438669 original size:38 final size:38
Alignment explanation
Indices: 119438618--119438692 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
119438608 ATTCTACCAT
*
119438618 GCAAGTTTTGTGGAATGGGGTTTCAACACATAAATTTG
1 GCAAGGTTTGTGGAATGGGGTTTCAACACATAAATTTG
119438656 GCAAGGTTTGTGGAATGGGGTTTCAACACATAAATTT
1 GCAAGGTTTGTGGAATGGGGTTTCAACACATAAATTT
119438693 AGGCCTACCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.33
Consensus pattern (38 bp):
GCAAGGTTTGTGGAATGGGGTTTCAACACATAAATTTG
Found at i:119449993 original size:16 final size:16
Alignment explanation
Indices: 119449945--119449998 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
119449935 AGTTATTATT
119449945 TATAA-AAGATATTTA
1 TATAATAAGATATTTA
*
119449960 T-TAATTAAG-TAATTA
1 TATAA-TAAGATATTTA
*
119449975 TATTATAAGATATTTA
1 TATAATAAGATATTTA
119449991 TATAATAA
1 TATAATAA
119449999 ATAAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
14 3 0.10
15 11 0.35
16 17 0.55
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
TATAATAAGATATTTA
Found at i:119450108 original size:2 final size:2
Alignment explanation
Indices: 119450096--119450126 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
119450086 TTGATGTTAT
119450096 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
119450127 GTTAAAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:119451364 original size:12 final size:12
Alignment explanation
Indices: 119451343--119451375 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
119451333 GTTCTCTGTG
119451343 TACCGTTACTAT
1 TACCGTTACTAT
*
119451355 TACTGTTACTAT
1 TACCGTTACTAT
119451367 TACCGTTAC
1 TACCGTTAC
119451376 AGTGTATTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.42
Consensus pattern (12 bp):
TACCGTTACTAT
Found at i:119457386 original size:17 final size:19
Alignment explanation
Indices: 119457342--119457403 Score: 90
Period size: 19 Copynumber: 3.2 Consensus size: 19
119457332 AAGTGAATTG
*
119457342 ATATATAT-ATTAAACTGAAA
1 ATATATATGATT-AGCTG-AA
119457362 ATATATATGATTAGCTGAA
1 ATATATATGATTAGCTGAA
119457381 ATATATATGATTAGCTGAA
1 ATATATATGATTAGCTGAA
119457400 ATAT
1 ATAT
119457404 GTACTGAATG
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
19 25 0.62
20 12 0.30
21 3 0.08
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (19 bp):
ATATATATGATTAGCTGAA
Found at i:119466226 original size:46 final size:46
Alignment explanation
Indices: 119466168--119466284 Score: 189
Period size: 46 Copynumber: 2.5 Consensus size: 46
119466158 GATAAGTACC
* * *
119466168 TATACCATGGCCCGAAGCCAAATCAAGGTAACTTATCCGAAATACT
1 TATATCATGGCCCGAAGCCAAATCAAGATAACTTATCCAAAATACT
* *
119466214 TATCTTATGGCCCGAAGCCAAATCAAGATAACTTATCCAAAATACT
1 TATATCATGGCCCGAAGCCAAATCAAGATAACTTATCCAAAATACT
119466260 TATATCATGGCCCGAAGCCAAATCA
1 TATATCATGGCCCGAAGCCAAATCA
119466285 GTTTATCTCG
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.23
Consensus pattern (46 bp):
TATATCATGGCCCGAAGCCAAATCAAGATAACTTATCCAAAATACT
Found at i:119477813 original size:56 final size:56
Alignment explanation
Indices: 119477689--119477805 Score: 225
Period size: 56 Copynumber: 2.1 Consensus size: 56
119477679 CAAGTAAACC
*
119477689 AATTTAAGCGAAAGCATCCCAAGGAGAAAACATTGTTAATCACCAAATGACAATCA
1 AATTTAAGCGAAAGCATCCCAAGAAGAAAACATTGTTAATCACCAAATGACAATCA
119477745 AATTTAAGCGAAAGCATCCCAAGAAGAAAACATTGTTAATCACCAAATGACAATCA
1 AATTTAAGCGAAAGCATCCCAAGAAGAAAACATTGTTAATCACCAAATGACAATCA
119477801 AATTT
1 AATTT
119477806 TTACGAAAAC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.21
Consensus pattern (56 bp):
AATTTAAGCGAAAGCATCCCAAGAAGAAAACATTGTTAATCACCAAATGACAATCA
Found at i:119480382 original size:19 final size:20
Alignment explanation
Indices: 119480338--119480390 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
119480328 TTAGTGATTC
119480338 AATATATATAATAATTAATT
1 AATATATATAATAATTAATT
119480358 AATATATAT-ATAATTAATT
1 AATATATATAATAATTAATT
**
119480377 TTTATATCATAATA
1 AATATAT-ATAATA
119480391 TATTTGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 15 0.52
20 11 0.38
21 3 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATATATAATAATTAATT
Found at i:119481514 original size:125 final size:126
Alignment explanation
Indices: 119481188--119481614 Score: 633
Period size: 126 Copynumber: 3.4 Consensus size: 126
119481178 ATTAATTACA
*
119481188 GAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGA
1 GAAAAAAGCTCCCACGTAGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGA
* * * * *
119481253 TGTTTTTGAACGAATTGTGTCAAAAACGCTTTAAGAAGGATGCATTGTCAGCAAAATTACG
66 TGTTTTTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAAAATTATG
* * * *
119481314 AAAAAAAGCTCCCACGTGGATGCTCTTTTGCTATAGTAGTATCTGAAAAAATAATTTTGAGAAGA
1 GAAAAAAGCTCCCACGTAGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGA
* * * *
119481379 TATTTTTGAACAAATAGTGTTAAAAACACTTCAAGAATGATGCACTGTCAGCAAAATTATG
66 TGTTTTTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAAAATTATG
* *
119481440 GAAAAAAGCT-CCACGTAGACGTTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTAAGAAGA
1 GAAAAAAGCTCCCACGTAGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGA
* *
119481504 TGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAAAAGGATGCACTGTCAGCAAAATTATG
66 TGTTTTTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAAAATTATG
* * ** *
119481565 GAAAAAAGCTGCTAAATAGATGCTCTTTTGCTACAGTAGTATCT-AAAAAA
1 GAAAAAAGCTCCCACGTAGACGCTCTTTTGCTACAGTAGTATCTGAAAAAA
119481615 GCCTTAGACT
Statistics
Matches: 271, Mismatches: 29, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
125 120 0.44
126 151 0.56
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.29
Consensus pattern (126 bp):
GAAAAAAGCTCCCACGTAGACGCTCTTTTGCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGA
TGTTTTTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTGTCAGCAAAATTATG
Found at i:119484793 original size:15 final size:15
Alignment explanation
Indices: 119484770--119484799 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
119484760 TAATTAAAAC
*
119484770 TATATAAATAATAAA
1 TATAAAAATAATAAA
119484785 TATAAAAATAATAAA
1 TATAAAAATAATAAA
119484800 AATATTGGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAAAATAATAAA
Found at i:119484817 original size:131 final size:128
Alignment explanation
Indices: 119484661--119485026 Score: 517
Period size: 131 Copynumber: 2.9 Consensus size: 128
119484651 ACATTTATTC
* *
119484661 TAATAAAAATTATTGGCTAATTTAAAAGAACATTTATTGTATTAAAATTAAAAAAAAAGTAAAGT
1 TAATAAAAA-TATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAAAGTAAAGT
119484726 ACAATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAATAATAAATATAAA
65 ACAATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAA-AAT-AATA-AAA
119484791 AA
127 AA
119484793 TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAAAGTAAAGTA
1 TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAAAGTAAAGTA
119484858 CAATTAAAATATTTAAAAA-AACTTTTATTTTATTAATTAAAACTATATAAAAATAATAAAAAA
66 CAATTAAAATA-TTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAAAATAATAAAAAA
* * * *
119484921 T-AT-----TA---CCTAATTTAAAAGAAAATTTATTTTAATAAAATT---AAAAAAGGAAAATA
1 TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAAAGTAAAGTA
*
119484974 CAATTAAAATATTAAAAACAACTTTTATTTTATT-ATATGAAACTATATAAAAA
66 CAATTAAAATATTAAAAACAACTTTTATTTTATTAAT-TAAAACTATATAAAAA
119485027 AAAGTTTTTA
Statistics
Matches: 224, Mismatches: 7, Indels: 22
0.89 0.03 0.09
Matches are distributed among these distances:
115 9 0.04
116 53 0.24
119 32 0.14
122 2 0.01
127 2 0.01
128 6 0.03
129 4 0.02
130 3 0.01
131 97 0.43
132 16 0.07
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (128 bp):
TAATAAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAAAAGTAAAGTA
CAATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACTATATAAAAATAATAAAAAA
Found at i:119485021 original size:116 final size:117
Alignment explanation
Indices: 119484784--119485026 Score: 368
Period size: 116 Copynumber: 2.1 Consensus size: 117
119484774 TAAATAATAA
*
119484784 ATATAAAAATAAT-AAAAATATTGGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAA
1 ATATAAAAATAATAAAAAATATTAGCTAATTTAAAAGAACATTTATTTTAATAAAATT--AAAAA
119484848 AAGTAAAGTACAATTAAAATATTTAAAAA-AACTTTTATTTTATTAATTAAAACT
64 AAGTAAAGTACAATTAAAATA-TTAAAAACAACTTTTATTTTATTAATTAAAACT
* *
119484902 ATATAAAAATAATAAAAAATATTACCTAATTTAAAAGAAAATTTATTTTAATAAAATT-AAAAAA
1 ATATAAAAATAATAAAAAATATTAGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAA
* * *
119484966 GGAAAATACAATTAAAATATTAAAAACAACTTTTATTTTATT-ATATGAAACT
66 GTAAAGTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAT-TAAAACT
119485018 ATATAAAAA
1 ATATAAAAA
119485027 AAAGTTTTTA
Statistics
Matches: 116, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
115 9 0.08
116 53 0.46
118 13 0.11
119 41 0.35
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.35
Consensus pattern (117 bp):
ATATAAAAATAATAAAAAATATTAGCTAATTTAAAAGAACATTTATTTTAATAAAATTAAAAAAA
GTAAAGTACAATTAAAATATTAAAAACAACTTTTATTTTATTAATTAAAACT
Found at i:119486106 original size:7 final size:7
Alignment explanation
Indices: 119486094--119486119 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
119486084 TTATATAGGT
119486094 AATACTA
1 AATACTA
119486101 AATACTA
1 AATACTA
119486108 AATACTA
1 AATACTA
119486115 AATAC
1 AATAC
119486120 GAAAGAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:119487310 original size:21 final size:22
Alignment explanation
Indices: 119487265--119487327 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 22
119487255 ACAGAGATTT
**
119487265 TTTG-CAAAAATTAGAGAGAGC
1 TTTGACAAAAATTAGAGAGAAA
119487286 TTTGACAAAAATT-GAGAGAAA
1 TTTGACAAAAATTAGAGAGAAA
* * *
119487307 TTTGAGAGAAATTGGAGAGAA
1 TTTGACAAAAATTAGAGAGAA
119487328 TTGTGAGAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 21 0.58
22 15 0.42
ACGTcount: A:0.46, C:0.05, G:0.25, T:0.24
Consensus pattern (22 bp):
TTTGACAAAAATTAGAGAGAAA
Found at i:119487313 original size:11 final size:11
Alignment explanation
Indices: 119487297--119487337 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
119487287 TTGACAAAAA
119487297 TTGAGAGAAAT
1 TTGAGAGAAAT
119487308 TTGAGAGAAAT
1 TTGAGAGAAAT
*
119487319 TGGAGAG-AAT
1 TTGAGAGAAAT
119487329 TGTGAGAGA
1 T-TGAGAGA
119487338 TGAGAGGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 4 0.15
11 22 0.85
ACGTcount: A:0.41, C:0.00, G:0.34, T:0.24
Consensus pattern (11 bp):
TTGAGAGAAAT
Found at i:119487327 original size:22 final size:21
Alignment explanation
Indices: 119487294--119487337 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
119487284 GCTTTGACAA
119487294 AAATTGAGAGAAATT-TGAGAG
1 AAATTGAGAG-AATTGTGAGAG
119487315 AAATTGGAGAGAATTGTGAGAG
1 AAATT-GAGAGAATTGTGAGAG
119487337 A
1 A
119487338 TGAGAGGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.23
Consensus pattern (21 bp):
AAATTGAGAGAATTGTGAGAG
Found at i:119490090 original size:20 final size:21
Alignment explanation
Indices: 119490054--119490096 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
119490044 TTTTACATTA
119490054 AATTCTAAATCTTGAATCTTG
1 AATTCTAAATCTTGAATCTTG
119490075 AATT-TAAAT-TTCGAATCTTG
1 AATTCTAAATCTT-GAATCTTG
119490095 AA
1 AA
119490097 CTCTGAATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 2 0.10
20 15 0.71
21 4 0.19
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (21 bp):
AATTCTAAATCTTGAATCTTG
Found at i:119490813 original size:21 final size:19
Alignment explanation
Indices: 119490788--119490836 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
119490778 AAAAATTAAT
119490788 AAAATATATAATAATAGTAAA
1 AAAATATATAATAA-A-TAAA
*
119490809 AAAATATTATATTAAATAAA
1 AAAATA-TATAATAAATAAA
119490829 AATAATAT
1 AA-AATAT
119490837 GGATGAAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 7 0.28
21 11 0.44
22 7 0.28
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATATATAATAAATAAA
Found at i:119491450 original size:2 final size:2
Alignment explanation
Indices: 119491443--119491486 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
119491433 ACAAACAATA
*
119491443 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
119491485 AT
1 AT
119491487 TTCCATTAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:119494859 original size:60 final size:61
Alignment explanation
Indices: 119494660--119494873 Score: 184
Period size: 60 Copynumber: 3.4 Consensus size: 61
119494650 CATAATTTTG
* *
119494660 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGTGACCTAGCCACT-TTATCTCGTA
1 GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCT---CACTAATATCTCGTA
** * * * * * * *
119494723 GCTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCT-AGCTACATCTATCTC
1 GCTCTCTTGTACACATGGTG---TACACATAGTATCACCCATGCGACCTCA-CTA-A--TATCTC
119494787 GTA
59 GTA
*
119494790 GCTCTCTTGT-CTACATGGTGTACACATAGTATCACCCATGCGACCTCA-TAATGTCTCGTA
1 GCTCTCTTGTAC-ACATGGTGTACACATAGTATCACCCATGCGACCTCACTAATATCTCGTA
*
119494850 GCTCTCTTGTACACATGGTATACA
1 GCTCTCTTGTACACATGGTGTACA
119494874 TCCCGTATTA
Statistics
Matches: 119, Mismatches: 21, Indels: 25
0.72 0.13 0.15
Matches are distributed among these distances:
60 29 0.24
61 1 0.01
62 2 0.02
63 22 0.18
64 19 0.16
65 1 0.01
66 18 0.15
67 27 0.23
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (61 bp):
GCTCTCTTGTACACATGGTGTACACATAGTATCACCCATGCGACCTCACTAATATCTCGTA
Found at i:119494895 original size:60 final size:60
Alignment explanation
Indices: 119494783--119494895 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 60
119494773 GCTACATCTA
* * *
119494783 TCTCGTAGCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTCATAATG
1 TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTCATAATG
* * *
119494843 TCTCGTAGCTCTCTTGTAC-ACATGGTATACATC-CCGTATTACACATGTGACCT
1 TCTCGTAGCTCTCTTGT-CTACATGGTATACA-CACAGTATCACACATGCGACCT
119494896 AGCTATATAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
60 43 0.96
61 2 0.04
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (60 bp):
TCTCGTAGCTCTCTTGTCTACATGGTATACACACAGTATCACACATGCGACCTCATAATG
Found at i:119497931 original size:18 final size:18
Alignment explanation
Indices: 119497908--119497944 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
119497898 TCATCCATCA
119497908 TATATTCGATAACATAGC
1 TATATTCGATAACATAGC
*
119497926 TATATTTGATAACATAGC
1 TATATTCGATAACATAGC
119497944 T
1 T
119497945 TCCCACTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (18 bp):
TATATTCGATAACATAGC
Found at i:119502060 original size:136 final size:137
Alignment explanation
Indices: 119501815--119502100 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
119501805 TATTGGGCCT
** * *
119501815 AAGCCCATTCAGGTAATAGTGATACTGGGCCAGAGCCCTTTTCAGTTTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
119501880 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
119501945 CATATGC
131 CATATGC
*
119501952 AAGCCCATTTGGGTAACAGTGGTACTGGGCCA-AGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
119502016 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
119502081 CATATGC
131 CATATGC
119502088 AAGCCCATTTGGG
1 AAGCCCATTTGGG
119502101 GAGACTACTC
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 116 0.81
137 28 0.19
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:119503916 original size:26 final size:26
Alignment explanation
Indices: 119503880--119503989 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
119503870 CATGAAATTC
119503880 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
119503906 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
119503932 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
119503958 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
119503984 TTATCA
1 TTATCA
119503990 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:119505985 original size:27 final size:27
Alignment explanation
Indices: 119505937--119506095 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
119505927 GCGAGGCTGC
* *
119505937 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
119505964 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
119505990 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
119506017 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
119506044 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
119506071 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
119506096 GACGCTTCCT
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 102 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:119506030 original size:54 final size:54
Alignment explanation
Indices: 119505955--119506095 Score: 248
Period size: 54 Copynumber: 2.6 Consensus size: 54
119505945 GTGACGAAGT
*
119505955 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
119506009 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
119506063 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
119506096 GACGCTTCCT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:119507737 original size:26 final size:26
Alignment explanation
Indices: 119507706--119507812 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
119507696 ATGAAATGCC
119507706 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
119507732 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
119507758 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
119507784 ATCATGGAACATTTACCT-AACCATT
1 ATCATGGAACATTTACCTAAACCATT
119507809 ATCA
1 ATCA
119507813 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 10 0.13
26 66 0.87
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:119513082 original size:27 final size:27
Alignment explanation
Indices: 119513034--119513192 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
119513024 GCGAGGCTTC
* *
119513034 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
119513061 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
119513087 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
119513114 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
119513141 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
119513168 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
119513193 GACGCTTCCT
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 102 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:119513127 original size:54 final size:54
Alignment explanation
Indices: 119513052--119513192 Score: 248
Period size: 54 Copynumber: 2.6 Consensus size: 54
119513042 GTGACGAAGT
*
119513052 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
119513106 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
119513160 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
119513193 GACGCTTCCT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:119514834 original size:26 final size:26
Alignment explanation
Indices: 119514803--119514910 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
119514793 TGAAATGCCC
*
119514803 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
119514829 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
119514855 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
119514881 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
119514907 ATCA
1 ATCA
119514911 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:119515549 original size:6 final size:6
Alignment explanation
Indices: 119515531--119515563 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
119515521 TTTTCTATAT
*
119515531 TTTTA- TTTAAG TTTTAG TTTTAG TTTTAG TTTT
1 TTTTAG TTTTAG TTTTAG TTTTAG TTTTAG TTTT
119515564 GATTTCAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (6 bp):
TTTTAG
Found at i:119517450 original size:11 final size:10
Alignment explanation
Indices: 119517434--119517629 Score: 60
Period size: 10 Copynumber: 20.0 Consensus size: 10
119517424 GACATGTGGC
119517434 AAAAAACTTAT
1 AAAAAA-TTAT
119517445 AAAAAA-TA-
1 AAAAAATTAT
119517453 AAAAAATTAT
1 AAAAAATTAT
***
119517463 AAATTTTTAAT
1 AAAAAATT-AT
119517474 AAAAATATTA-
1 AAAAA-ATTAT
**
119517484 AAAATTTTAT
1 AAAAAATTAT
*
119517494 TAAAAA-TAT
1 AAAAAATTAT
*
119517503 -AAAAATCAT
1 AAAAAATTAT
119517512 AAAAAATTAT
1 AAAAAATTAT
119517522 AAAATAA--AT
1 AAAA-AATTAT
* *
119517531 -AGAAATATAG
1 AAAAAAT-TAT
119517541 AAGAAAATT-T
1 AA-AAAATTAT
* * *
119517551 ATAAATTTTT
1 AAAAAATTAT
* * *
119517561 ATAAAGTCAT
1 AAAAAATTAT
119517571 AAGAAAATTAT
1 AA-AAAATTAT
119517582 AAAAAATGTA-
1 AAAAAAT-TAT
*
119517592 AAGAAA-TAT
1 AAAAAATTAT
119517601 --AAAATTAGT
1 AAAAAATTA-T
119517610 AAAAAAATTAT
1 -AAAAAATTAT
119517621 -AAAAATTAT
1 AAAAAATTAT
119517630 TGTACCAAAA
Statistics
Matches: 136, Mismatches: 27, Indels: 46
0.65 0.13 0.22
Matches are distributed among these distances:
7 5 0.04
8 17 0.12
9 29 0.21
10 45 0.33
11 27 0.20
12 13 0.10
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:119517477 original size:21 final size:21
Alignment explanation
Indices: 119517449--119517508 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
119517439 ACTTATAAAA
* *
119517449 AATAAAAAAATTATAAATTTTT
1 AATAAAAATATTA-AAAATTTT
119517471 AATAAAAATATTAAAAATTTT
1 AATAAAAATATTAAAAATTTT
*
119517492 ATTAAAAATA-TAAAAAT
1 AATAAAAATATTAAAAAT
119517509 CATAAAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
20 7 0.20
21 16 0.46
22 12 0.34
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AATAAAAATATTAAAAATTTT
Found at i:119517531 original size:30 final size:29
Alignment explanation
Indices: 119517472--119517555 Score: 73
Period size: 30 Copynumber: 2.9 Consensus size: 29
119517462 TAAATTTTTA
* * *
119517472 ATAAAAATATTAAAAATTTTATTAAAAAT
1 ATAAAAATATAAAAAATTATATAAAAAAT
119517501 ATAAAAATCATAAAAAATTATA-AAATAAAT
1 ATAAAAAT-ATAAAAAATTATATAAA-AAAT
* * *
119517531 AGAAATATAGAAGAAAATT-TATAAA
1 ATAAAAATATAA-AAAATTATATAAA
119517556 TTTTTATAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
29 15 0.33
30 30 0.67
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (29 bp):
ATAAAAATATAAAAAATTATATAAAAAAT
Found at i:119517867 original size:11 final size:9
Alignment explanation
Indices: 119517813--119517881 Score: 57
Period size: 9 Copynumber: 7.4 Consensus size: 9
119517803 TTGTTGCATA
*
119517813 TTATTATTT
1 TTATAATTT
*
119517822 TTATGATTT
1 TTATAATTT
*
119517831 TTATATTTT
1 TTATAATTT
**
119517840 TTACGATTT
1 TTATAATTT
119517849 TTATAATTT
1 TTATAATTT
*
119517858 TTAATAAATT
1 TT-ATAATTT
*
119517868 TTAGATATTT
1 TTATA-ATTT
119517878 TTAT
1 TTAT
119517882 TAAAATTTAA
Statistics
Matches: 46, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
9 32 0.70
10 14 0.30
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.65
Consensus pattern (9 bp):
TTATAATTT
Found at i:119517869 original size:19 final size:19
Alignment explanation
Indices: 119517847--119517910 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
119517837 TTTTTACGAT
119517847 TTTTATAATTTTTAATAAA
1 TTTTATAATTTTTAATAAA
* *
119517866 TTTTAGATATTTTTATTAAAA
1 TTTTATA-ATTTTTAAT-AAA
* * *
119517887 TTTAATAA-TCTTAATAAC
1 TTTTATAATTTTTAATAAA
119517905 TTTTAT
1 TTTTAT
119517911 TGATTTTTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
18 7 0.20
19 11 0.31
20 9 0.26
21 8 0.23
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTTATAATTTTTAATAAA
Found at i:119519310 original size:25 final size:26
Alignment explanation
Indices: 119519264--119519312 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
119519254 TTAGTTAACG
* **
119519264 AAATATAAATACCATATGTAAAAAAA
1 AAATATAAATACCAAAAATAAAAAAA
119519290 AAAT-TAAATACCAAAAATAAAAA
1 AAATATAAATACCAAAAATAAAAA
119519313 TATAATTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.20
Consensus pattern (26 bp):
AAATATAAATACCAAAAATAAAAAAA
Found at i:119523744 original size:110 final size:110
Alignment explanation
Indices: 119523613--119523871 Score: 306
Period size: 110 Copynumber: 2.4 Consensus size: 110
119523603 CCTTAAAATT
**
119523613 AATTATGAACGTAATCAATTGAATTATCCAATTAATTGTACAATCATAATTTTACAGTTGGAA-C
1 AATTATGAACGTAATCAATTGAATTATCCAATTAATTGTACAATCATAAACTTACAGTT-GAATC
*
119523677 ATAA-TTTGTTTAAATATAAACCCTAAACACATATACACGTGTCTCG
65 A-AATTTTGTTCAAATATAAACCCTAAACACATATACACGTGTCTCG
* ** * * *
119523723 AATTATTAACGTAATTGATTGAATTATTCAATTGATTGTACACTCATAAACTTACAGTTGAATCA
1 AATTATGAACGTAATCAATTGAATTATCCAATTAATTGTACAATCATAAACTTACAGTTGAATCA
* * ** *
119523788 AATTTTGTTCAAATATAAACCCTAAACTCATATATAAATGTCTCA
66 AATTTTGTTCAAATATAAACCCTAAACACATATACACGTGTCTCG
* * * * * *
119523833 AATTACGAATGTAACCAGTTGAATGATCAAATTAATTGT
1 AATTATGAACGTAATCAATTGAATTATCCAATTAATTGT
119523872 TTCACTTGAA
Statistics
Matches: 122, Mismatches: 25, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
109 5 0.04
110 117 0.96
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (110 bp):
AATTATGAACGTAATCAATTGAATTATCCAATTAATTGTACAATCATAAACTTACAGTTGAATCA
AATTTTGTTCAAATATAAACCCTAAACACATATACACGTGTCTCG
Found at i:119524218 original size:132 final size:131
Alignment explanation
Indices: 119523952--119524207 Score: 307
Period size: 132 Copynumber: 1.9 Consensus size: 131
119523942 ATTGATTGCA
* * *
119523952 TTATTCAATTAATCTATAATCATAAAGTTACAATTGAATCGAAAGTTGTTAAAGTGTAAACCCTA
1 TTATCCAATTAATCTATAATCATAAAGTTACAATTAAATCGAAAGTTGTTAAAGTATAAACCCTA
* ** ** **
119524017 CACTCATATCCACATGTCTTGAATTATGAATGTAACTGATTGAATTCTAATTAATTGTACAATCA
66 AACTCATATCCACATGTCTCAAATTATGAACATAACCAATTGAATTCTAATTAATTGTACAATCA
119524082 T
131 T
* * * * * *
119524083 TTATCCAATTAATCGTATAATCATGAATTTACAATTAAATCGAAATTTGTTCGAA-TATGAACCG
1 TTATCCAATTAATC-TATAATCATAAAGTTACAATTAAATCGAAAGTTGTT-AAAGTATAAACCC
* *
119524147 TAAACTCATATGCACATGTCTCAAATTTTGAACATAACCAATTGAATTATCTAATTAATTG
64 TAAACTCATATCCACATGTCTCAAATTATGAACATAACCAATTGAA-T-TCTAATTAATTG
119524208 AATTGGTTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
131 13 0.13
132 75 0.73
133 3 0.03
134 12 0.12
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (131 bp):
TTATCCAATTAATCTATAATCATAAAGTTACAATTAAATCGAAAGTTGTTAAAGTATAAACCCTA
AACTCATATCCACATGTCTCAAATTATGAACATAACCAATTGAATTCTAATTAATTGTACAATCA
T
Found at i:119524873 original size:24 final size:24
Alignment explanation
Indices: 119524846--119524898 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
119524836 AGTCATTATG
*
119524846 AAATTGTAAGTTAATATAATGATA
1 AAATTGTAAGTTAATATAATAATA
*
119524870 AAATTGTAATTTAATATAATAATA
1 AAATTGTAAGTTAATATAATAATA
119524894 AAATT
1 AAATT
119524899 ATACTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.40
Consensus pattern (24 bp):
AAATTGTAAGTTAATATAATAATA
Found at i:119525039 original size:11 final size:11
Alignment explanation
Indices: 119525010--119525040 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
119525000 AAAACTTCAT
*
119525010 AAAAGTGGTTA
1 AAAAGTGTTTA
119525021 AAAAGTGTTTA
1 AAAAGTGTTTA
119525032 AAAAGTGTT
1 AAAAGTGTT
119525041 CGAGTAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (11 bp):
AAAAGTGTTTA
Found at i:119529714 original size:54 final size:51
Alignment explanation
Indices: 119529587--119529733 Score: 174
Period size: 54 Copynumber: 2.9 Consensus size: 51
119529577 GTGTGGCTTG
* * * *
119529587 AGGCTCGACTCACCTCTCGCAACATGAGTTAATTTTTG-AAAA-AACAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAAAA
* * *
119529636 AGG-TATAACTCAACTCTCGCAATATGAGTTGCTTTTTGAAAAACAGAAATTAAA
1 AGGCT-CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA-AAA--AAA
119529690 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
119529734 CGGAATTGGA
Statistics
Matches: 81, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
48 1 0.01
49 30 0.37
50 4 0.05
51 1 0.01
52 2 0.02
54 42 0.52
55 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (51 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAAAA
Found at i:119529872 original size:88 final size:88
Alignment explanation
Indices: 119529690--119529900 Score: 241
Period size: 88 Copynumber: 2.4 Consensus size: 88
119529680 AGAAATTAAA
* * *
119529690 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACCGGAATTGGAAAGTAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAACCAGAATTGGAAAATAGAAATT
* * *
119529755 GAAGATACCTCAATGTGTCCCGT
66 GAAAATACCTCAACGTGTACCGT
* * * *
119529778 -GACTCAACTCGCTTCTCGCAATATGAGTTGATTCTTTCAAAAA-CATAATAAT-GAAAATAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTCAAAAACCAGAAT--TGGAAAATAGAA
** *
119529840 ATTGAAAATACCTCGGCGTG-ACCTT
63 ATTGAAAATACCTCAACGTGTACCGT
*
119529865 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
119529901 GAAAACGTAG
Statistics
Matches: 102, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
87 39 0.38
88 62 0.61
89 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (88 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTCAAAAACCAGAATTGGAAAATAGAAATT
GAAAATACCTCAACGTGTACCGT
Found at i:119530087 original size:71 final size:71
Alignment explanation
Indices: 119529959--119530096 Score: 208
Period size: 71 Copynumber: 1.9 Consensus size: 71
119529949 GATTTTTTTG
* * *
119529959 AAAAACAAAAATTAAAATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTT
1 AAAAACAAAAATTAAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGCAATATGAGTT
119530024 GAAATT
66 GAAATT
*
119530030 AAAACACAAAAATTGAAAA-TACCTCAGCGTG-CCCGAGGCTCAACTCACTTCTAGCAATATGAG
1 AAAA-ACAAAAATT-AAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGCAATATGAG
119530093 TTGA
64 TTGA
119530097 TTTTGAAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
71 37 0.61
72 20 0.33
73 4 0.07
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.25
Consensus pattern (71 bp):
AAAAACAAAAATTAAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTAGCAATATGAGTT
GAAATT
Found at i:119530196 original size:57 final size:56
Alignment explanation
Indices: 119530123--119530264 Score: 209
Period size: 54 Copynumber: 2.6 Consensus size: 56
119530113 GGTATAACTT
* * * *
119530123 CTCTCGCAATATGAGTTGATTTTTTTTGAAAAATA-TAAGTTGAAAGGTTCAACTCAC
1 CTCTCGCAATATGAGTTGA-TTTTTTTGAAAAACAGGAA-TTAAAAGGTTCAACCCAC
119530180 CTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGGAATTAAAAGGTTCAACCCAC
1 CTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGGAATTAAAAGGTTCAACCCAC
119530234 CTCTCGCAATATGAGTTGATTTTTTTGAAAA
1 CTCTCGCAATATGAGTTGATTTTTTTGAAAA
119530265 GTAGAAATTA
Statistics
Matches: 78, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
54 47 0.60
55 2 0.03
56 10 0.13
57 19 0.24
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (56 bp):
CTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGGAATTAAAAGGTTCAACCCAC
Found at i:119530611 original size:74 final size:71
Alignment explanation
Indices: 119530367--119530713 Score: 327
Period size: 75 Copynumber: 4.9 Consensus size: 71
119530357 AGAAATTAAA
* * * * *
119530367 AGGCTTAACTCACCTTTCGCAAGATGAGTCAATTTTCT-AAACATAAACT-AAAA-ACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTT-TGAAACATAAATTAAAAATACCTCAGCG
* *
119530429 TGCCCCG
65 TGACCTG
* * * * *
119530436 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGGAACATAAATTGAAATTACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAACATAAATTAAAAATACCTCAGCGT
*
119530500 --CTTG
66 GACCTG
119530504 AGGCTCAACTCA-CT-TCGCAATATGAG-CTGATTTTTGAAACA-ACGGGAATTAAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTC-GATTTTTGAAACATA----AATTAAAAATACCTC
119530565 AGCGTGACCTG
61 AGCGTGACCTG
** * *
119530576 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTTTGAAACATAAACTAAAAATACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGA--TTTTTGAAACATAAATTAAAAATACCTCAGC
119530641 GTGTGACCTG
64 --GTGACCTG
** * * *
119530651 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAACATGAATTAAAGATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTG-AAACATAAATTAAAAATACCTCAG
119530714 AGTACCCAAA
Statistics
Matches: 228, Mismatches: 30, Indels: 35
0.78 0.10 0.12
Matches are distributed among these distances:
66 15 0.07
67 12 0.05
68 26 0.11
69 30 0.13
70 26 0.11
72 13 0.06
73 25 0.11
74 34 0.15
75 35 0.15
76 11 0.05
77 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.28
Consensus pattern (71 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAACATAAATTAAAAATACCTCAGCGT
GACCTG
Found at i:119545108 original size:31 final size:31
Alignment explanation
Indices: 119545045--119545108 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
119545035 TGCCATTAGG
*
119545045 GTCTAAAAAGCAATAGGTATTCTGTACCGGT
1 GTCTAAAAAGCAATAGGTACTCTGTACCGGT
* * *
119545076 GTCTAAAAAGTATTAGGTAC-CTCGTACTGGT
1 GTCTAAAAAGCAATAGGTACTCT-GTACCGGT
119545107 GT
1 GT
119545109 TGGATGCTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (31 bp):
GTCTAAAAAGCAATAGGTACTCTGTACCGGT
Found at i:119546140 original size:30 final size:30
Alignment explanation
Indices: 119546106--119546163 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
119546096 CAGGGACTGG
119546106 CACATGGGCGTGTGGTCAGCCCGTGTGGCT
1 CACATGGGCGTGTGGTCAGCCCGTGTGGCT
*
119546136 CACATGGGTGTGTGGTCAGCCCGTGTGG
1 CACATGGGCGTGTGGTCAGCCCGTGTGG
119546164 ATCCTGGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.10, C:0.24, G:0.41, T:0.24
Consensus pattern (30 bp):
CACATGGGCGTGTGGTCAGCCCGTGTGGCT
Found at i:119548029 original size:9 final size:9
Alignment explanation
Indices: 119548010--119548216 Score: 63
Period size: 9 Copynumber: 21.6 Consensus size: 9
119548000 AAAAAGAAAG
119548010 ATAACAAATA
1 ATAA-AAATA
119548020 ATAAAAATA
1 ATAAAAATA
*
119548029 ATAATAATA
1 ATAAAAATA
119548038 ATAATAAAATA
1 AT-A-AAAATA
119548049 ATAATAAACTCA
1 ATAA-AAA-T-A
*
119548061 AT-AATATCA
1 ATAAAAAT-A
**
119548070 ATAAACTTAA
1 ATAAAAAT-A
*
119548080 AGGTAACAATA
1 A--TAAAAATA
*
119548091 GCACAAAAA-A
1 --ATAAAAATA
119548101 ATACAAAA-A
1 ATA-AAAATA
119548110 ATAAAAATA
1 ATAAAAATA
* *
119548119 AAAATAACAAA
1 ATAA-AA-ATA
119548130 ATAAAAATA
1 ATAAAAATA
*
119548139 A-AAATAAAA
1 ATAAA-AATA
119548148 ATAAAAATA
1 ATAAAAATA
119548157 AT-AAAAT-
1 ATAAAAATA
119548164 ATATAAAA-A
1 ATA-AAAATA
*
119548173 ATTAAAA-A
1 ATAAAAATA
119548181 ATAAAAAATA
1 AT-AAAAATA
119548191 A-AAAATATA
1 ATAAAA-ATA
119548200 AGTATAAGAATA
1 A-TA-AA-AATA
119548212 ATAAA
1 ATAAA
119548217 TTAATTAATT
Statistics
Matches: 151, Mismatches: 20, Indels: 52
0.68 0.09 0.23
Matches are distributed among these distances:
7 2 0.01
8 25 0.17
9 59 0.39
10 28 0.19
11 22 0.15
12 13 0.09
13 2 0.01
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.21
Consensus pattern (9 bp):
ATAAAAATA
Found at i:119548066 original size:3 final size:3
Alignment explanation
Indices: 119548016--119548055 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
119548006 AAAGATAACA
*
119548016 AAT AAT AAA AAT AAT AAT AAT AAT AAT AA- AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
119548056 ACTCAATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:119548115 original size:7 final size:7
Alignment explanation
Indices: 119548096--119548197 Score: 97
Period size: 8 Copynumber: 14.1 Consensus size: 7
119548086 CAATAGCACA
119548096 AAAAAAT
1 AAAAAAT
119548103 ACAAAAA-
1 A-AAAAAT
119548110 ATAAAAAT
1 A-AAAAAT
119548118 -AAAAAT
1 AAAAAAT
119548124 AACAAAAT
1 AA-AAAAT
119548132 -AAAAAT
1 AAAAAAT
119548138 -AAAAAT
1 AAAAAAT
119548144 -AAAAAT
1 AAAAAAT
119548150 AAAAATAAT
1 -AAAA-AAT
119548159 AAAATATAT
1 AAAA-A-AT
119548168 AAAAAATT
1 AAAAAA-T
119548176 AAAAAAT
1 AAAAAAT
119548183 AAAAAAT
1 AAAAAAT
119548190 AAAAAAT
1 AAAAAAT
119548197 A
1 A
119548198 TAAGTATAAG
Statistics
Matches: 85, Mismatches: 1, Indels: 18
0.82 0.01 0.17
Matches are distributed among these distances:
6 23 0.27
7 26 0.31
8 27 0.32
9 9 0.11
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAAAAT
Found at i:119548117 original size:6 final size:6
Alignment explanation
Indices: 119548106--119548194 Score: 90
Period size: 6 Copynumber: 13.8 Consensus size: 6
119548096 AAAAAATACA
119548106 AAAAAT AAAAAT AAAAAT AACAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT -A-AAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* *
119548156 AATAAAAT ATATAA- AAAATT AAAAAAT AAAAAAT AAAAA
1 -A-AAAAT A-AAAAT AAAAAT -AAAAAT -AAAAAT AAAAA
119548195 ATATAAGTAT
Statistics
Matches: 73, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
5 2 0.03
6 41 0.56
7 20 0.27
8 10 0.14
ACGTcount: A:0.81, C:0.01, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:119548275 original size:12 final size:12
Alignment explanation
Indices: 119548107--119548284 Score: 63
Period size: 12 Copynumber: 14.4 Consensus size: 12
119548097 AAAAATACAA
119548107 AAAATAA-AAAT
1 AAAATAATAAAT
*
119548118 AAAAATAACAAAAT
1 -AAAATAA-TAAAT
119548132 AAAAATAA-AAAT
1 -AAAATAATAAAT
119548144 AAAAATAA-AAAT
1 -AAAATAATAAAT
*
119548156 AATAA-AATATAT
1 AA-AATAATAAAT
*
119548168 AAAA-AATTAA-
1 AAAATAATAAAT
*
119548178 AAAATAAAAAAT
1 AAAATAATAAAT
*
119548190 AAAAAATATAAGTAT
1 AAAATA-ATAA--AT
119548205 AAGAATAATAAATT
1 AA-AATAATAAA-T
* *
119548219 AATTAATTAATTAGT
1 AA--AA-TAATAAAT
119548234 AAAATAA-AAAT
1 AAAATAATAAAT
119548245 AATAAT-ATAACA-
1 AA-AATAATAA-AT
*
119548257 ATTAATAATAAAT
1 A-AAATAATAAAT
119548270 AAAAT-A-AAAT
1 AAAATAATAAAT
119548280 AAAAT
1 AAAAT
119548285 TGGGGTGATT
Statistics
Matches: 132, Mismatches: 15, Indels: 40
0.71 0.08 0.21
Matches are distributed among these distances:
10 13 0.10
11 20 0.15
12 51 0.39
13 12 0.09
14 15 0.11
15 13 0.10
16 8 0.06
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.25
Consensus pattern (12 bp):
AAAATAATAAAT
Found at i:119551247 original size:10 final size:10
Alignment explanation
Indices: 119551232--119551258 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
119551222 ATTAATAAAG
119551232 TAATATATCA
1 TAATATATCA
119551242 TAATATATCA
1 TAATATATCA
119551252 TAATATA
1 TAATATA
119551259 CTTCCCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (10 bp):
TAATATATCA
Found at i:119552657 original size:10 final size:10
Alignment explanation
Indices: 119552629--119552658 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
119552619 TGCGTGTTTA
119552629 AATAGAAATG
1 AATAGAAATG
119552639 AAT-GAAATG
1 AATAGAAATG
119552648 AATAGAAATG
1 AATAGAAATG
119552658 A
1 A
119552659 GAAACATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (10 bp):
AATAGAAATG
Found at i:119552756 original size:18 final size:18
Alignment explanation
Indices: 119552733--119552769 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
119552723 GCAGTTTCTA
*
119552733 AAAATAGAAATGGAAATG
1 AAAATAAAAATGGAAATG
119552751 AAAATAAAAATGGAAATG
1 AAAATAAAAATGGAAATG
119552769 A
1 A
119552770 TCCATTTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (18 bp):
AAAATAAAAATGGAAATG
Found at i:119552981 original size:26 final size:26
Alignment explanation
Indices: 119552919--119552988 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
119552909 TTTCTTAAAT
* **
119552919 TTTTACTAGGAGCCAAATTGTCAAAA
1 TTTTACTAGGGGTAAAATTGTCAAAA
*
119552945 TTTTATTAGGGGTAAAATTGTCAAAA
1 TTTTACTAGGGGTAAAATTGTCAAAA
119552971 TTTTACTAGGGGTAAAAT
1 TTTTACTAGGGGTAAAAT
119552989 AGGGATGAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.36
Consensus pattern (26 bp):
TTTTACTAGGGGTAAAATTGTCAAAA
Found at i:119554283 original size:101 final size:101
Alignment explanation
Indices: 119554108--119554310 Score: 370
Period size: 101 Copynumber: 2.0 Consensus size: 101
119554098 ATTACAATTG
**
119554108 ACCTGTCATAGTAAAGTCACTTTTAAATCATTAAATAGTATTGATTCTCAGTCTAGGTGCACGTA
1 ACCTGTCATAGTAAAGTCACTTTTAAATCATTAAATAGTATTGATTCTCAGTCTAGGTGCACACA
*
119554173 CACTGGGGCACGGTCAATTCTCTAGGAGATGCTTGC
66 CACTGGGGCACGGTCAATTCTCTAGGAGATACTTGC
*
119554209 ACCTGTCATAGTAAAGTCACTTTTAAATCATTAAATAGTATTGATTTTCAGTCTAGGTGCACACA
1 ACCTGTCATAGTAAAGTCACTTTTAAATCATTAAATAGTATTGATTCTCAGTCTAGGTGCACACA
119554274 CACTGGGGCACGGTCAATTCTCTAGGAGATACTTGC
66 CACTGGGGCACGGTCAATTCTCTAGGAGATACTTGC
119554310 A
1 A
119554311 TCACCTCATC
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 98 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (101 bp):
ACCTGTCATAGTAAAGTCACTTTTAAATCATTAAATAGTATTGATTCTCAGTCTAGGTGCACACA
CACTGGGGCACGGTCAATTCTCTAGGAGATACTTGC
Found at i:119564570 original size:15 final size:16
Alignment explanation
Indices: 119564550--119564582 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
119564540 ATATATTTTT
119564550 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
119564565 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
119564582 T
1 T
119564583 ATAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:119564668 original size:22 final size:22
Alignment explanation
Indices: 119564629--119564687 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
119564619 GTTTTAAGAA
*
119564629 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
119564650 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
119564672 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
119564688 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:119564704 original size:26 final size:24
Alignment explanation
Indices: 119564658--119564717 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
119564648 ATTTGTTTTA
*
119564658 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
119564682 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
119564708 TTTTTTATTT
1 ATATTTATTT
119564718 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:119565861 original size:28 final size:28
Alignment explanation
Indices: 119565819--119565914 Score: 79
Period size: 28 Copynumber: 3.4 Consensus size: 28
119565809 TTCAAATATT
* *
119565819 AAAAATTAGAAAAAAATATAAATATCGTAA
1 AAAAATTA-TAAAATATATAAA-ATCGTAA
* * *
119565849 AAAAATTATAAAACATGTAGAAAT-ATAA
1 AAAAATTATAAAATATATA-AAATCGTAA
* *
119565877 AAAAATTATAAAATTTTATAAAGTCGT-A
1 AAAAATTATAAAA-TATATAAAATCGTAA
119565905 AAAAATTATA
1 AAAAATTATA
119565915 CAAAATGTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
28 30 0.56
29 14 0.26
30 10 0.19
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.28
Consensus pattern (28 bp):
AAAAATTATAAAATATATAAAATCGTAA
Found at i:119571355 original size:24 final size:24
Alignment explanation
Indices: 119571328--119571373 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
119571318 TTGATTAACA
*
119571328 TAAATGTATAAATGCTTCATTTAT
1 TAAATATATAAATGCTTCATTTAT
* *
119571352 TAAATATGTTAATGCTTCATTT
1 TAAATATATAAATGCTTCATTT
119571374 GAAAGAAGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.48
Consensus pattern (24 bp):
TAAATATATAAATGCTTCATTTAT
Found at i:119571932 original size:82 final size:82
Alignment explanation
Indices: 119571795--119571959 Score: 258
Period size: 82 Copynumber: 2.0 Consensus size: 82
119571785 TACTTTCGCC
* * * * *
119571795 ACCAATAGATCGGTTTGATTCAATTTAATTAAGTTTGTTGTTTTTGTATCATGTCTACGAACTAG
1 ACCAAGAGATCAGTTCGATTCAATTTAACTAAGTTTGTTGTTTTTGTATCATGTCTAAGAACTAG
119571860 TTTAGCAATGCTTTTCA
66 TTTAGCAATGCTTTTCA
* * *
119571877 ACCAAGAGATCAGTTCGGTTCAATTTGACTAAGTTTGTTGTTTTTGTATCATGTCTAAGAGCTAG
1 ACCAAGAGATCAGTTCGATTCAATTTAACTAAGTTTGTTGTTTTTGTATCATGTCTAAGAACTAG
119571942 TTTAGCAATGCTTTTCA
66 TTTAGCAATGCTTTTCA
119571959 A
1 A
119571960 AAGTGTTTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 75 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.42
Consensus pattern (82 bp):
ACCAAGAGATCAGTTCGATTCAATTTAACTAAGTTTGTTGTTTTTGTATCATGTCTAAGAACTAG
TTTAGCAATGCTTTTCA
Found at i:119577331 original size:21 final size:20
Alignment explanation
Indices: 119577307--119577389 Score: 52
Period size: 18 Copynumber: 4.1 Consensus size: 20
119577297 TGATTGATAT
119577307 TGAAATGGCCAAGATGAGAAA
1 TGAAATGG-CAAGATGAGAAA
119577328 TGAATAT-G--AGATGAGAAATA
1 TGAA-ATGGCAAGATGAG-AA-A
*
119577348 TTGAATTGGCAAAGATGAGAAA
1 -TGAAATGGC-AAGATGAGAAA
119577370 TGAATAT-G--AGATGAGAAA
1 TGAA-ATGGCAAGATGAGAAA
119577388 TG
1 TG
119577390 TGATATGAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 21
0.69 0.03 0.28
Matches are distributed among these distances:
18 19 0.37
19 2 0.04
20 2 0.04
21 15 0.29
22 4 0.08
23 2 0.04
24 7 0.14
ACGTcount: A:0.47, C:0.04, G:0.28, T:0.22
Consensus pattern (20 bp):
TGAAATGGCAAGATGAGAAA
Found at i:119577341 original size:18 final size:18
Alignment explanation
Indices: 119577318--119577411 Score: 82
Period size: 18 Copynumber: 4.8 Consensus size: 18
119577308 GAAATGGCCA
119577318 AGATGAGAAATGAATATG
1 AGATGAGAAATGAATATG
119577336 AGATGAGAAATATTGAAT-TGG
1 AGATGAG-AA-A-TGAATAT-G
119577357 CAAAGATGAGAAATGAATATG
1 ---AGATGAGAAATGAATATG
*
119577378 AGATGAGAAATGTGATATG
1 AGATGAGAAATG-AATATG
*
119577397 AAATGATGAAATGAA
1 AGATGA-GAAATGAA
119577412 ATGTGAAACT
Statistics
Matches: 63, Mismatches: 3, Indels: 19
0.74 0.04 0.22
Matches are distributed among these distances:
18 19 0.30
19 13 0.21
20 8 0.13
21 12 0.19
22 2 0.03
23 2 0.03
24 7 0.11
ACGTcount: A:0.49, C:0.01, G:0.27, T:0.23
Consensus pattern (18 bp):
AGATGAGAAATGAATATG
Found at i:119577363 original size:42 final size:42
Alignment explanation
Indices: 119577303--119577388 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
119577293 TATATGATTG
*
119577303 ATATTGAAATGGCCAAGATGAGAAATGAATATGAGATGAGAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAA
*
119577345 ATATTGAATTGGCAAAGATGAGAAATGAATATGAGATGAGAA
1 ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAA
119577387 AT
1 AT
119577389 GTGATATGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.48, C:0.03, G:0.26, T:0.23
Consensus pattern (42 bp):
ATATTGAAATGGCAAAGATGAGAAATGAATATGAGATGAGAA
Found at i:119577412 original size:13 final size:12
Alignment explanation
Indices: 119577384--119577419 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
119577374 TATGAGATGA
*
119577384 GAAATGTGATAT
1 GAAATGTGAAAT
119577396 GAAATGATGAAAT
1 GAAATG-TGAAAT
119577409 GAAATGTGAAA
1 GAAATGTGAAA
119577420 CTTGAAATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (12 bp):
GAAATGTGAAAT
Found at i:119580847 original size:26 final size:29
Alignment explanation
Indices: 119580806--119580868 Score: 96
Period size: 26 Copynumber: 2.3 Consensus size: 29
119580796 CATATTGAAC
*
119580806 GAATTTTCTCGAAATTTTACCAGCGGTAA
1 GAATTTTCTCGAAATTTTACCAACGGTAA
119580835 -AATTTT-T-GAAATTTTACCAACGGTAA
1 GAATTTTCTCGAAATTTTACCAACGGTAA
119580861 GAATTTTC
1 GAATTTTC
119580869 AAAACTTTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 18 0.58
27 7 0.23
28 6 0.19
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (29 bp):
GAATTTTCTCGAAATTTTACCAACGGTAA
Found at i:119580877 original size:27 final size:26
Alignment explanation
Indices: 119580821--119580878 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
119580811 TTCTCGAAAT
* ** *
119580821 TTTACCAGCGGTAAAATTTTTGAAAT
1 TTTACCAACGGTAAAATTTTCAAAAC
119580847 TTTACCAACGGTAAGAATTTTCAAAAC
1 TTTACCAACGGTAA-AATTTTCAAAAC
119580874 TTTAC
1 TTTAC
119580879 TGTGTAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 13 0.48
27 14 0.52
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (26 bp):
TTTACCAACGGTAAAATTTTCAAAAC
Found at i:119583439 original size:5 final size:5
Alignment explanation
Indices: 119583364--119583431 Score: 136
Period size: 5 Copynumber: 13.6 Consensus size: 5
119583354 AAGAAATTGT
119583364 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
119583414 TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TAT
119583432 ATTGTATTAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 63 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:119583889 original size:37 final size:37
Alignment explanation
Indices: 119583848--119583921 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
119583838 TAATTATGTG
*
119583848 TAAGTTTGGTTAAAAATTGAGTAGAAATAAAGTATGA
1 TAAGTTTGGCTAAAAATTGAGTAGAAATAAAGTATGA
119583885 TAAGTTTGGCTAAAAATTGAGTAGAAATAAAGTATGA
1 TAAGTTTGGCTAAAAATTGAGTAGAAATAAAGTATGA
119583922 ATTAAGATAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.46, C:0.01, G:0.22, T:0.31
Consensus pattern (37 bp):
TAAGTTTGGCTAAAAATTGAGTAGAAATAAAGTATGA
Found at i:119585109 original size:6 final size:6
Alignment explanation
Indices: 119585098--119585160 Score: 117
Period size: 6 Copynumber: 10.5 Consensus size: 6
119585088 ATGTGCCGAC
119585098 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT
*
119585146 TACTAT TACTGT TAC
1 TACTGT TACTGT TAC
119585161 CGATTCGGCA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
TACTGT
Found at i:119585217 original size:45 final size:45
Alignment explanation
Indices: 119585140--119585244 Score: 147
Period size: 45 Copynumber: 2.3 Consensus size: 45
119585130 CTGTTACTGT
* * *
119585140 TACTGTTACTATTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGTTACCGATTCAGCACTTTGTGTGTCGAA
* * *
119585185 TACTATTACTGTTACCGTTATCGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACCGTTACCGATTCAGCACTTTGTGTGTCGAA
*
119585230 TATTGTTACTGTTAC
1 TACTGTTACTGTTAC
119585245 TGTTCCGGAT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (45 bp):
TACTGTTACTGTTACCGTTACCGATTCAGCACTTTGTGTGTCGAA
Found at i:119585450 original size:18 final size:18
Alignment explanation
Indices: 119585427--119585614 Score: 137
Period size: 18 Copynumber: 10.4 Consensus size: 18
119585417 CTGATTATTT
119585427 CTGAATAATTGACTGTTA
1 CTGAATAATTGACTGTTA
* *
119585445 CCGAATAATTGACTATTA
1 CTGAATAATTGACTGTTA
* * *
119585463 CTGGATAATAGATTGTTA
1 CTGAATAATTGACTGTTA
* * *
119585481 CTGAATAACTGAATATTA
1 CTGAATAATTGACTGTTA
* *
119585499 CTGAATAAATGA-TCATTA
1 CTGAATAATTGACT-GTTA
* * *
119585517 CTGAATAACTGATTGTCA
1 CTGAATAATTGACTGTTA
*
119585535 CTGAATAAATGACTGTTA
1 CTGAATAATTGACTGTTA
* * * *
119585553 CTTAATAACTTTATTGCTA
1 CTGAATAA-TTGACTGTTA
* *
119585572 CTGAATATTTGA-TTTTA
1 CTGAATAATTGACTGTTA
* *
119585589 CTAAATAATTGATTGTTA
1 CTGAATAATTGACTGTTA
*
119585607 CTGGATAA
1 CTGAATAA
119585615 CCGATCAATT
Statistics
Matches: 132, Mismatches: 34, Indels: 8
0.76 0.20 0.05
Matches are distributed among these distances:
17 14 0.11
18 105 0.80
19 13 0.10
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (18 bp):
CTGAATAATTGACTGTTA
Found at i:119585517 original size:54 final size:54
Alignment explanation
Indices: 119585412--119585560 Score: 158
Period size: 54 Copynumber: 2.8 Consensus size: 54
119585402 AAAGGTATAA
* ** * * *
119585412 AATAACTGATTATTTCTGAATAATTGACTGTTACCGAATAATTGACTATTACTG
1 AATAACTGATTGTCACTGAATAAATGACTGTTACTGAATAAATGACTATTACTG
* * * * *
119585466 GATAA-TAGATTGTTACTGAATAACTGAATATTACTGAATAAATGA-TCATTACTG
1 AATAACT-GATTGTCACTGAATAAATGACTGTTACTGAATAAATGACT-ATTACTG
*
119585520 AATAACTGATTGTCACTGAATAAATGACTGTTACTTAATAA
1 AATAACTGATTGTCACTGAATAAATGACTGTTACTGAATAA
119585561 CTTTATTGCT
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
53 2 0.03
54 75 0.96
55 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.36
Consensus pattern (54 bp):
AATAACTGATTGTCACTGAATAAATGACTGTTACTGAATAAATGACTATTACTG
Found at i:119585657 original size:18 final size:18
Alignment explanation
Indices: 119585631--119585694 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
119585621 AATTGATCGA
*
119585631 TACTGAATAACTGGTTAT
1 TACTGAATAACTGATTAT
* *
119585649 TATTGAATAATTGATTAT
1 TACTGAATAACTGATTAT
* * *
119585667 TACCGAATAACTGACTGT
1 TACTGAATAACTGATTAT
119585685 TACTGAATAA
1 TACTGAATAA
119585695 ATAATTGTTC
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:119586460 original size:10 final size:10
Alignment explanation
Indices: 119586445--119586473 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
119586435 ATTGCGTGTT
119586445 TGAATAGAAA
1 TGAATAGAAA
119586455 TGAATAG-AA
1 TGAATAGAAA
119586464 TGAATAGAAA
1 TGAATAGAAA
119586474 AAGAGAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:119586774 original size:26 final size:26
Alignment explanation
Indices: 119586728--119586800 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
119586718 ACAAATTTTC
*
119586728 TCAAAATTTTATC-CGAGGTAAAAACG
1 TCAAAATTTTATCGGGA-GTAAAAACG
* * **
119586754 TTAGAATTTTATCGGGAGTAAAATTG
1 TCAAAATTTTATCGGGAGTAAAAACG
119586780 TCAAAATTTTATCGGGAGTAA
1 TCAAAATTTTATCGGGAGTAA
119586801 CTAGGGTAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 37 0.95
27 2 0.05
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTATCGGGAGTAAAAACG
Found at i:119586811 original size:26 final size:26
Alignment explanation
Indices: 119586758--119586813 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
119586748 AAAACGTTAG
**
119586758 AATTTTATCGGGAGTAAAATTGTCAA
1 AATTTTATCGGGAGTAAAAGGGTCAA
*
119586784 AATTTTATCGGGAGTAACTAGGGT-AA
1 AATTTTATCGGGAGTAA-AAGGGTCAA
119586810 AATT
1 AATT
119586814 GAGATAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (26 bp):
AATTTTATCGGGAGTAAAAGGGTCAA
Found at i:119588050 original size:28 final size:28
Alignment explanation
Indices: 119588017--119588112 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 28
119588007 ACATCGTATT
119588017 TGTGGAAGTCCGCCAGGACAATCTTAAA
1 TGTGGAAGTCCGCCAGGACAATCTTAAA
* * * **
119588045 AGTGGAAGTCCGTCAGGACCAT-TGTATT
1 TGTGGAAGTCCGCCAGGACAATCT-TAAA
* * * *
119588073 TGTGGAAGTCTGCCAAGATAGTCTTAAA
1 TGTGGAAGTCCGCCAGGACAATCTTAAA
119588101 TGTGGAAGTCCG
1 TGTGGAAGTCCG
119588113 ACTATAAGTG
Statistics
Matches: 51, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
27 1 0.02
28 49 0.96
29 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (28 bp):
TGTGGAAGTCCGCCAGGACAATCTTAAA
Found at i:119595530 original size:14 final size:15
Alignment explanation
Indices: 119595511--119595539 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
119595501 TTGAGTCTCT
119595511 TTATTTTATT-TTTA
1 TTATTTTATTATTTA
119595525 TTATTTTATTATTTA
1 TTATTTTATTATTTA
119595540 CTTTTAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTTTATTATTTA
Found at i:119600663 original size:2 final size:2
Alignment explanation
Indices: 119600656--119600683 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
119600646 GTGGCTTCGC
119600656 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
119600684 TATATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:119603139 original size:10 final size:10
Alignment explanation
Indices: 119603112--119603170 Score: 84
Period size: 10 Copynumber: 5.9 Consensus size: 10
119603102 TTAAATTCTA
119603112 AAAGATAAAT
1 AAAGATAAAT
119603122 ACAA-ATAAAT
1 A-AAGATAAAT
*
119603132 AAAGATAATT
1 AAAGATAAAT
119603142 AAAGATAAAT
1 AAAGATAAAT
*
119603152 AAGGATAAAT
1 AAAGATAAAT
119603162 AAAGATAAA
1 AAAGATAAA
119603171 AGCTAAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 2 0.05
10 39 0.91
11 2 0.05
ACGTcount: A:0.68, C:0.02, G:0.10, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:119604758 original size:14 final size:14
Alignment explanation
Indices: 119604739--119604790 Score: 95
Period size: 14 Copynumber: 3.7 Consensus size: 14
119604729 TCTTTATACA
119604739 TTTAAAACATTTGT
1 TTTAAAACATTTGT
119604753 TTTAAAACATTTGT
1 TTTAAAACATTTGT
119604767 TTTAAAACATTTGT
1 TTTAAAACATTTGT
*
119604781 TTTGAAACAT
1 TTTAAAACAT
119604791 CCCTCGTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.48
Consensus pattern (14 bp):
TTTAAAACATTTGT
Found at i:119605311 original size:27 final size:26
Alignment explanation
Indices: 119605251--119605312 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
119605241 GGAAGGCTCT
119605251 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
119605277 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
119605305 ATTTTATT
1 ATTTTATT
119605313 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:119611722 original size:11 final size:11
Alignment explanation
Indices: 119611699--119611738 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
119611689 TTTATTATTT
119611699 TTATTTTTATTA
1 TTATTTTT-TTA
119611711 TTATTTTTTTA
1 TTATTTTTTTA
*
119611722 TTATTTTATT-
1 TTATTTTTTTA
119611732 TTATTTT
1 TTATTTT
119611739 ATTTTGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 7 0.26
11 12 0.44
12 8 0.30
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TTATTTTTTTA
Found at i:119611732 original size:5 final size:5
Alignment explanation
Indices: 119611687--119611753 Score: 73
Period size: 5 Copynumber: 13.0 Consensus size: 5
119611677 TTAATTTTAA
* *
119611687 ATTTT ATTAT -TTTT ATTTTT ATTATT ATTTT TTTATT ATTTT ATTTT
1 ATTTT ATTTT ATTTT A-TTTT ATT-TT ATTTT ATT-TT ATTTT ATTTT
*
119611734 ATTTT ATTTT GTTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT
119611754 TAATTATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
4 3 0.06
5 35 0.67
6 14 0.27
ACGTcount: A:0.19, C:0.00, G:0.01, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:119611764 original size:15 final size:16
Alignment explanation
Indices: 119611691--119611764 Score: 73
Period size: 15 Copynumber: 4.6 Consensus size: 16
119611681 TTTTAAATTT
119611691 TATTATTTTTATTTTTA
1 TATTA-TTTTATTTTTA
119611708 TTATTATTTT-TTTATTA
1 -TATTATTTTATTT-TTA
*
119611725 TTTTATTTTA-TTTTA
1 TATTATTTTATTTTTA
* *
119611740 TTTTGTTTTATTTTTA
1 TATTATTTTATTTTTA
119611756 -ATTATTTTA
1 TATTATTTTA
119611765 ATAAAATTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
15 19 0.39
16 18 0.37
17 7 0.14
18 5 0.10
ACGTcount: A:0.22, C:0.00, G:0.01, T:0.77
Consensus pattern (16 bp):
TATTATTTTATTTTTA
Found at i:119611919 original size:22 final size:22
Alignment explanation
Indices: 119611894--119611936 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
119611884 GCCCTAGACC
119611894 AACCCTACACCTGCAGCCAAAT
1 AACCCTACACCTGCAGCCAAAT
* *
119611916 AACCTTGCACCTGCAGCCAAA
1 AACCCTACACCTGCAGCCAAA
119611937 CACCACTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.40, G:0.12, T:0.14
Consensus pattern (22 bp):
AACCCTACACCTGCAGCCAAAT
Found at i:119614130 original size:118 final size:118
Alignment explanation
Indices: 119613926--119614144 Score: 332
Period size: 118 Copynumber: 1.9 Consensus size: 118
119613916 AGTACAGCTT
* *
119613926 AAATCATGACTGACTAAGTAACCGGGGTAGGGTGCTTGGGTTGTTATTCTACTTCGCGTCAAAAG
1 AAATCATGACTGACTAAGTAACCGGGGTAAGGTGCTTGGGTTGTCATTCTACTTCGCGTCAAAAG
* *
119613991 GTTGTGTGATGTGACAAGTAAAACTCCGCTAGCCGAGGTTATGAGTATTGCCC
66 GTTGCGTGATGTGACAAGTAAAACTCCGCTAACCGAGGTTATGAGTATTGCCC
* *
119614044 AAATCGTGACTGACTGAGTAACCGGGGTAAGGTGCTTGGGTTGTCATTCTACTTCGCGTCAAAAG
1 AAATCATGACTGACTAAGTAACCGGGGTAAGGTGCTTGGGTTGTCATTCTACTTCGCGTCAAAAG
****
119614109 GTTGCGTG-TCGTGTTGGGTAAAACTCCGCTAACCGA
66 GTTGCGTGAT-GTGACAAGTAAAACTCCGCTAACCGA
119614145 AAATAAAAAA
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
117 1 0.01
118 89 0.99
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (118 bp):
AAATCATGACTGACTAAGTAACCGGGGTAAGGTGCTTGGGTTGTCATTCTACTTCGCGTCAAAAG
GTTGCGTGATGTGACAAGTAAAACTCCGCTAACCGAGGTTATGAGTATTGCCC
Found at i:119616602 original size:31 final size:31
Alignment explanation
Indices: 119616556--119616637 Score: 128
Period size: 31 Copynumber: 2.6 Consensus size: 31
119616546 TCGGTAAAAA
*
119616556 TGGGCTCACACGCCCATGTGATCTGCCCGTG
1 TGGGCCCACACGCCCATGTGATCTGCCCGTG
* * *
119616587 TGGGCCCATATGCCCATGTGATCTGCTCGTG
1 TGGGCCCACACGCCCATGTGATCTGCCCGTG
119616618 TGGGCCCACACGCCCATGTG
1 TGGGCCCACACGCCCATGTG
119616638 GCCCACTCGG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.13, C:0.34, G:0.29, T:0.23
Consensus pattern (31 bp):
TGGGCCCACACGCCCATGTGATCTGCCCGTG
Found at i:119618628 original size:31 final size:31
Alignment explanation
Indices: 119618593--119618668 Score: 107
Period size: 31 Copynumber: 2.5 Consensus size: 31
119618583 AATGTGGATA
*
119618593 ATTACAGGGTATGAACATGTGAATATGAATG
1 ATTACAGGGTATGAACATATGAATATGAATG
* * * *
119618624 ATTACCGAGTATAAACATATGAATATGGATG
1 ATTACAGGGTATGAACATATGAATATGAATG
119618655 ATTACAGGGTATGA
1 ATTACAGGGTATGA
119618669 TAATGCAAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (31 bp):
ATTACAGGGTATGAACATATGAATATGAATG
Found at i:119621477 original size:57 final size:58
Alignment explanation
Indices: 119621389--119621506 Score: 166
Period size: 57 Copynumber: 2.1 Consensus size: 58
119621379 TATTTCCAGG
* * *
119621389 TCATTTTCATTTTAGAGAAAGCCACATTCATTTCCAGATGATTCC-ATTTCTCCATTT
1 TCATTTTCATTTTAGAGAAAACCACAATCATTTCCAAATGATTCCTATTTCTCCATTT
* * * *
119621446 TCATTTTTATTTTAGAGAAAATCATAATCATTTCCAAATGTTTCCTATTTCTCCATTT
1 TCATTTTCATTTTAGAGAAAACCACAATCATTTCCAAATGATTCCTATTTCTCCATTT
119621504 TCA
1 TCA
119621507 CTATGTCTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 38 0.72
58 15 0.28
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.45
Consensus pattern (58 bp):
TCATTTTCATTTTAGAGAAAACCACAATCATTTCCAAATGATTCCTATTTCTCCATTT
Found at i:119623458 original size:52 final size:52
Alignment explanation
Indices: 119623401--119623506 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
119623391 TAACATAAAA
*
119623401 AAAAGTTCCTCATATGATTAATATTACACACATGGAAGGCCAAATAAATAAG
1 AAAAGTTCCTCATATGATCAATATTACACACATGGAAGGCCAAATAAATAAG
119623453 AAAAGTTCCTCATATGATCAATATTACACACATGGAAGGCCAAATAAATAAG
1 AAAAGTTCCTCATATGATCAATATTACACACATGGAAGGCCAAATAAATAAG
119623505 AA
1 AA
119623507 TTATGTATCT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.47, C:0.16, G:0.13, T:0.24
Consensus pattern (52 bp):
AAAAGTTCCTCATATGATCAATATTACACACATGGAAGGCCAAATAAATAAG
Found at i:119633786 original size:9 final size:9
Alignment explanation
Indices: 119633774--119633798 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
119633764 TTTTCTCTTT
119633774 TTTTAAATA
1 TTTTAAATA
119633783 TTTTAAATA
1 TTTTAAATA
119633792 TTTTAAA
1 TTTTAAA
119633799 AAATTGGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTTAAATA
Found at i:119635102 original size:22 final size:22
Alignment explanation
Indices: 119635061--119635102 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
119635051 AAATTATTTT
*
119635061 AAAAAATTATAAAAATGAAAAA
1 AAAAAATTATAAAAAGGAAAAA
119635083 AAAAAATTA-AAAATAGGAAA
1 AAAAAATTATAAAA-AGGAAA
119635103 TTACCTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (22 bp):
AAAAAATTATAAAAAGGAAAAA
Found at i:119642173 original size:30 final size:30
Alignment explanation
Indices: 119642138--119642204 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
119642128 TAAACTAAAT
*
119642138 AGTATAATCACACAATTCAAATATAATATA
1 AGTATAATCACACAATTCAAACATAATATA
119642168 AGTATAATCACACAATTCAAACATAATATA
1 AGTATAATCACACAATTCAAACATAATATA
119642198 A-TATAAT
1 AGTATAAT
119642205 ATAGTAAGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 6 0.17
30 30 0.83
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.30
Consensus pattern (30 bp):
AGTATAATCACACAATTCAAACATAATATA
Found at i:119643620 original size:26 final size:26
Alignment explanation
Indices: 119643557--119643621 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
119643547 TTTTCAGAAA
*
119643557 TGTAAAATTTTAACTATTTTGCCCCT
1 TGTAAAATTTTGACTATTTTGCCCCT
* * *
119643583 AGTAAAATTTTGA-TGATTTTGTCTCT
1 TGTAAAATTTTGACT-ATTTTGCCCCT
119643609 TGTAAAATTTTGA
1 TGTAAAATTTTGA
119643622 GAAAATATGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
25 1 0.03
26 32 0.97
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.48
Consensus pattern (26 bp):
TGTAAAATTTTGACTATTTTGCCCCT
Found at i:119645543 original size:14 final size:14
Alignment explanation
Indices: 119645524--119645550 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
119645514 GTTTACGTGT
119645524 AAAATGTTTTATGG
1 AAAATGTTTTATGG
119645538 AAAATGTTTTATG
1 AAAATGTTTTATG
119645551 CATTTTCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (14 bp):
AAAATGTTTTATGG
Found at i:119645872 original size:22 final size:22
Alignment explanation
Indices: 119645847--119645890 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
119645837 TAGTCATATA
119645847 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
119645869 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
119645891 TATTTAATAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:119645993 original size:21 final size:22
Alignment explanation
Indices: 119645909--119645995 Score: 58
Period size: 21 Copynumber: 3.9 Consensus size: 22
119645899 AGTTCAATGT
119645909 TATTTT-AATAATAAA-A-TAA
1 TATTTTAAATAATAAATATTAA
*
119645928 TAATTTTAAATAAT-ATTATTCACA
1 T-ATTTTAAATAATAAATATT-A-A
* *
119645952 TATTATTGAAAATATTCAATATTAA
1 TATT-TT--AAATAATAAATATTAA
119645977 TATTTT-AATAATAAATATT
1 TATTTTAAATAATAAATATT
119645996 TATTACAATT
Statistics
Matches: 53, Mismatches: 5, Indels: 18
0.70 0.07 0.24
Matches are distributed among these distances:
19 1 0.02
20 6 0.11
21 18 0.34
22 1 0.02
23 4 0.08
24 6 0.11
25 5 0.09
26 7 0.13
27 5 0.09
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (22 bp):
TATTTTAAATAATAAATATTAA
Found at i:119645995 original size:15 final size:15
Alignment explanation
Indices: 119645975--119646026 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
119645965 ATTCAATATT
119645975 AATATTTTAATAATA
1 AATATTTTAATAATA
*
119645990 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
119646009 AATATATTAATAATA
1 AATATTTTAATAATA
119646024 AAT
1 AAT
119646027 GTTTCGTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 13 0.43
16 2 0.07
17 4 0.13
18 1 0.03
19 10 0.33
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:119657924 original size:46 final size:44
Alignment explanation
Indices: 119657823--119657930 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
119657813 TGTCTTTGAC
** * * *
119657823 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
* *
119657867 ATGGACTTACATGGCTCAATCCTGTCTCTAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
119657913 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
119657931 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 32 0.58
46 23 0.42
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Done.