Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold264
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: 1000627
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Warning! 64 characters in sequence are not A, C, G, or T
File 5 of 6
Found at i:743433 original size:334 final size:334
Alignment explanation
Indices: 742824--743488 Score: 1312
Period size: 334 Copynumber: 2.0 Consensus size: 334
742814 GAGTTCGTCC
742824 TTAGTCTTGAAACGTGAAACGAAGTTACTGTATAGTTCTATCATTTTCGGTAATACTATGAAATC
1 TTAGTCTTGAAACGTGAAACGAAGTTACTGTATAGTTCTATCATTTTCGGTAATACTATGAAATC
742889 CTATTATTATTTTTTGTTCATTTATCAAACATTATTAATTAAATGATGAACATGATGCACTATGA
66 CTATTATTATTTTTTGTTCATTTATCAAACATTATTAATTAAATGATGAACATGATGCACTATGA
*
742954 TATGCAAGGTCTTGTAAGGATTTTGCGACGAATTGCGAAATTATATCTCATTCAAAGAAGAAAGG
131 TATGCAAGGTCATGTAAGGATTTTGCGACGAATTGCGAAATTATATCTCATTCAAAGAAGAAAGG
743019 TACAAATTAAGACAAATATGGTGGAGTCTTTAAATACAATAGAGATGAAGGAAATTTTCTTGGCT
196 TACAAATTAAGACAAATATGGTGGAGTCTTTAAATACAATAGAGATGAAGGAAATTTTCTTGGCT
743084 GATTGGTCCTGATGCTGATAACATGGATGTTCCACTAAGAGCTTTCAAAGATTTCTCACGAGCAA
261 GATTGGTCCTGATGCTGATAACATGGATGTTCCACTAAGAGCTTTCAAAGATTTCTCACGAGCAA
743149 TCGATCCTA
326 TCGATCCTA
*
743158 TTAGTCTTGAAACGTGAAACGAAGTTACTGTATAGTTCTATCATTTTCGGTAATACTATGAGATC
1 TTAGTCTTGAAACGTGAAACGAAGTTACTGTATAGTTCTATCATTTTCGGTAATACTATGAAATC
743223 CTATTATTATTTTTTGTTCATTTATCAAACATTATTAATTAAATGATGAACATGATGCACTATGA
66 CTATTATTATTTTTTGTTCATTTATCAAACATTATTAATTAAATGATGAACATGATGCACTATGA
743288 TATGCAAGGTCATGTAAGGATTTTGCGACGAATTGCGAAATTATATCTCATTCAAAGAAGAAAGG
131 TATGCAAGGTCATGTAAGGATTTTGCGACGAATTGCGAAATTATATCTCATTCAAAGAAGAAAGG
743353 TACAAATTAAGACAAATATGGTGGAGTCTTTAAATACAATAGAGATGAAGGAAATTTTCTTGGCT
196 TACAAATTAAGACAAATATGGTGGAGTCTTTAAATACAATAGAGATGAAGGAAATTTTCTTGGCT
743418 GATTGGTCCTGATGCTGATAACATGGATGTTCCACTAAGAGCTTTCAAAGATTTCTCACGAGCAA
261 GATTGGTCCTGATGCTGATAACATGGATGTTCCACTAAGAGCTTTCAAAGATTTCTCACGAGCAA
743483 TCGATC
326 TCGATC
743489 TTTCGGTGTC
Statistics
Matches: 329, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
334 329 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (334 bp):
TTAGTCTTGAAACGTGAAACGAAGTTACTGTATAGTTCTATCATTTTCGGTAATACTATGAAATC
CTATTATTATTTTTTGTTCATTTATCAAACATTATTAATTAAATGATGAACATGATGCACTATGA
TATGCAAGGTCATGTAAGGATTTTGCGACGAATTGCGAAATTATATCTCATTCAAAGAAGAAAGG
TACAAATTAAGACAAATATGGTGGAGTCTTTAAATACAATAGAGATGAAGGAAATTTTCTTGGCT
GATTGGTCCTGATGCTGATAACATGGATGTTCCACTAAGAGCTTTCAAAGATTTCTCACGAGCAA
TCGATCCTA
Found at i:743724 original size:1 final size:1
Alignment explanation
Indices: 743718--743813 Score: 57
Period size: 1 Copynumber: 96.0 Consensus size: 1
743708 CAGATTCTTC
* * * * * * ** * *
743718 TTTTTTTTCTCTTTTTCTTTGTTTTGTTTTTTTTTTTTTTGTTTTTTTTTGGTTTGTTTTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* ** * *
743783 TTCTTTTGGTTGTTTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
743814 GAAAAAGAAT
Statistics
Matches: 69, Mismatches: 26, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.84
Consensus pattern (1 bp):
T
Found at i:743732 original size:11 final size:10
Alignment explanation
Indices: 743718--743811 Score: 91
Period size: 10 Copynumber: 8.9 Consensus size: 10
743708 CAGATTCTTC
*
743718 TTTTTTTTCTC
1 TTTTTTTT-TG
*
743729 TTTTTCTTTG
1 TTTTTTTTTG
743739 TTTTGTTTTT-
1 TTTT-TTTTTG
743749 TTTTTTTTTG
1 TTTTTTTTTG
743759 TTTTTTTTTGG
1 TTTTTTTTT-G
743770 TTTGTTTTTTTG
1 -TT-TTTTTTTG
* *
743782 TTTCTTTTGG
1 TTTTTTTTTG
743792 TTGTTTTTTTG
1 TT-TTTTTTTG
743803 TTTTTTTTT
1 TTTTTTTTT
743812 TTGAAAAAGA
Statistics
Matches: 70, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
9 5 0.07
10 33 0.47
11 22 0.31
12 3 0.04
13 7 0.10
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:758358 original size:20 final size:20
Alignment explanation
Indices: 758315--758454 Score: 105
Period size: 20 Copynumber: 7.7 Consensus size: 20
758305 AAAATGCCTG
* *
758315 AATGTATCGATACATTGTA-A
1 AATGTATCGATACAATG-AGC
*
758335 AATGTATTGATACAATGAGC
1 AATGTATCGATACAATGAGC
758355 AATG--T--AT-CAAT-A-C
1 AATGTATCGATACAATGAGC
758368 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
758388 AATG--T--AT-CAAT-A-C
1 AATGTATCGATACAATGAGC
758401 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
* *
758421 AATGTATCGATATAATGCA-A
1 AATGTATCGATACAATG-AGC
758441 AATGTATCGATACA
1 AATGTATCGATACA
758455 TTTGGCTAAA
Statistics
Matches: 98, Mismatches: 6, Indels: 32
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.10
14 2 0.02
15 10 0.10
16 4 0.04
17 4 0.04
18 10 0.10
19 3 0.03
20 54 0.55
21 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAATGAGC
Found at i:758370 original size:13 final size:13
Alignment explanation
Indices: 758354--758417 Score: 59
Period size: 13 Copynumber: 5.4 Consensus size: 13
758344 ATACAATGAG
758354 CAATGTATCAATA
1 CAATGTATCAATA
*
758367 CAATGTATCGATA
1 CAATGTATCAATA
*
758380 CAATG-----A-G
1 CAATGTATCAATA
758387 CAATGTATCAATA
1 CAATGTATCAATA
*
758400 CAATGTATCGATA
1 CAATGTATCAATA
758413 CAATG
1 CAATG
758418 AGCAATGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
7 5 0.12
8 1 0.02
12 1 0.02
13 34 0.83
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCAATA
Found at i:758380 original size:33 final size:33
Alignment explanation
Indices: 758335--758437 Score: 179
Period size: 33 Copynumber: 3.1 Consensus size: 33
758325 TACATTGTAA
*
758335 AATGTATTGATACAATGAGCAATGTATCAATAC
1 AATGTATCGATACAATGAGCAATGTATCAATAC
758368 AATGTATCGATACAATGAGCAATGTATCAATAC
1 AATGTATCGATACAATGAGCAATGTATCAATAC
* *
758401 AATGTATCGATACAATGAGCAATGTATCGATAT
1 AATGTATCGATACAATGAGCAATGTATCAATAC
758434 AATG
1 AATG
758438 CAAAATGTAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 67 1.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCAATAC
Found at i:758509 original size:13 final size:13
Alignment explanation
Indices: 758491--758517 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
758481 ATACAAAGAT
758491 CGATGTATCGATA
1 CGATGTATCGATA
758504 CGATGTATCGATA
1 CGATGTATCGATA
758517 C
1 C
758518 ATTGAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (13 bp):
CGATGTATCGATA
Found at i:762537 original size:97 final size:97
Alignment explanation
Indices: 762280--762526 Score: 343
Period size: 97 Copynumber: 2.5 Consensus size: 97
762270 TTTTTTATTA
* * ** * * * *
762280 AAAAACGAGGTTGAAGTATCGTCTCGGAGGAATGGGGTTGAAGTGTCCTCGATGATGACAATTTA
1 AAAAGCGAGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTATCCCCGATGATGAAAATTTA
*
762345 AGTGAGAATAAGATTTAAACTTTGATGTGTTT
66 AATGAGAATAAGATTTAAACTTTGATGTGTTT
* * *
762377 AAAAG-TAGGATTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTTTCCCCGATGATGATAATTT
1 AAAAGCGAGG-TTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTATCCCCGATGATGAAAATTT
* *
762441 AAATGCGAATGAGATTTAAACTTTGATGTGTTT
65 AAATGAGAATAAGATTTAAACTTTGATGTGTTT
*
762474 AAAAGCGAGGTTGGAGTATCCCCTCGGAGGAATAGGGTTGGAGTATCCCCGAT
1 AAAAGCGAGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTATCCCCGAT
762527 AAATAAAATT
Statistics
Matches: 133, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
96 3 0.02
97 127 0.95
98 3 0.02
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.29
Consensus pattern (97 bp):
AAAAGCGAGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTATCCCCGATGATGAAAATTTA
AATGAGAATAAGATTTAAACTTTGATGTGTTT
Found at i:763068 original size:18 final size:18
Alignment explanation
Indices: 763045--763081 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
763035 AAAGTTTTCA
763045 AAAATCATTTAGTAGGTC
1 AAAATCATTTAGTAGGTC
763063 AAAATCATTTAGTAGGTC
1 AAAATCATTTAGTAGGTC
763081 A
1 A
763082 TAACAAAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (18 bp):
AAAATCATTTAGTAGGTC
Found at i:764193 original size:13 final size:13
Alignment explanation
Indices: 764175--764200 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
764165 CAATTTTTTG
764175 TGTATCGATACAT
1 TGTATCGATACAT
764188 TGTATCGATACAT
1 TGTATCGATACAT
764201 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:764939 original size:21 final size:21
Alignment explanation
Indices: 764898--764942 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
764888 CTCTCTTTTA
* *
764898 TCTCCCCCATTTATTAATAAT
1 TCTCCCCCATTAATCAATAAT
764919 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCATTAATCAA-TAAT
764940 TCT
1 TCT
764943 TATCAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.27, C:0.31, G:0.02, T:0.40
Consensus pattern (21 bp):
TCTCCCCCATTAATCAATAAT
Found at i:766744 original size:13 final size:13
Alignment explanation
Indices: 766726--766764 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
766716 ATAATCACCC
*
766726 TGTATCGATACAG
1 TGTATCGATACAA
*
766739 TGTATCAATACAA
1 TGTATCGATACAA
766752 TGTATCGATACAA
1 TGTATCGATACAA
766765 AGAAAAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:766775 original size:20 final size:20
Alignment explanation
Indices: 766750--766828 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
766740 GTATCAATAC
766750 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
766770 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
766795 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
766815 CATGTATCGATACA
1 AATGTATCGATACA
766829 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:768860 original size:15 final size:15
Alignment explanation
Indices: 768840--768870 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
768830 ATTTCGTTTG
*
768840 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
768855 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
768870 G
1 G
768871 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:770703 original size:21 final size:21
Alignment explanation
Indices: 770674--770718 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
770664 AAGTTTTCAT
*
770674 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
770694 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
770716 TTT
1 TTT
770719 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:772955 original size:13 final size:13
Alignment explanation
Indices: 772937--772962 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
772927 CAATTTTTTG
772937 TGTATCGATACAT
1 TGTATCGATACAT
772950 TGTATCGATACAT
1 TGTATCGATACAT
772963 ACTTGCTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:773900 original size:16 final size:16
Alignment explanation
Indices: 773875--773908 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
773865 TTGACGGGAA
773875 AATGAGTGAATGAATT
1 AATGAGTGAATGAATT
*
773891 AATGATTGAATGAATT
1 AATGAGTGAATGAATT
773907 AA
1 AA
773909 CATTGATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (16 bp):
AATGAGTGAATGAATT
Found at i:778775 original size:31 final size:31
Alignment explanation
Indices: 778737--778803 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
778727 CAATTGGTAT
778737 TAGTTATGCTCAATGAATTCTTATTTATCAA
1 TAGTTATGCTCAATGAATTCTTATTTATCAA
778768 TAGTTATGCTCAATGAATTCTTATTTATCAA
1 TAGTTATGCTCAATGAATTCTTATTTATCAA
778799 TAGTT
1 TAGTT
778804 GGTATCATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.46
Consensus pattern (31 bp):
TAGTTATGCTCAATGAATTCTTATTTATCAA
Found at i:780685 original size:13 final size:13
Alignment explanation
Indices: 780667--780693 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
780657 ACATTATGCT
780667 TTGTATCGATACA
1 TTGTATCGATACA
780680 TTGTATCGATACA
1 TTGTATCGATACA
780693 T
1 T
780694 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:780702 original size:19 final size:19
Alignment explanation
Indices: 780677--780835 Score: 88
Period size: 20 Copynumber: 7.9 Consensus size: 19
780667 TTGTATCGAT
*
780677 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
* *
780696 TCATTGTATCGATACATAC
1 ACATTGTATCGATACATGC
780715 ACAATTGTATCGATACATG-
1 AC-ATTGTATCGATACATGC
* * * * * *
780734 AAACTGGCAGTAGCTACCCTAGC
1 ACA-TTGTA-TCGATA-CAT-GC
* *
780757 ACTGTTTGTATCGATACATGGT
1 AC--ATTGTATCGATACAT-GC
*
780779 ACATTGTATCGATACATGGT
1 ACATTGTATCGATACAT-GC
780799 ACATTGTATCGATACATG-
1 ACATTGTATCGATACATGC
*
780817 ATGAATTGTATCGATACAT
1 A--CATTGTATCGATACAT
780836 TGCTTCAAAC
Statistics
Matches: 108, Mismatches: 22, Indels: 19
0.72 0.15 0.13
Matches are distributed among these distances:
18 2 0.02
19 22 0.20
20 68 0.63
21 2 0.02
22 6 0.06
23 5 0.05
24 3 0.03
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:780723 original size:20 final size:19
Alignment explanation
Indices: 780677--780732 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
780667 TTGTATCGAT
**
780677 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATAC
*
780696 TCATTGTATCGATACATAC
1 ACATTGTATCGATACATAC
780715 ACAATTGTATCGATACAT
1 AC-ATTGTATCGATACAT
780733 GAAACTGGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATAC
Found at i:780787 original size:20 final size:20
Alignment explanation
Indices: 780762--780835 Score: 123
Period size: 20 Copynumber: 3.7 Consensus size: 20
780752 CTAGCACTGT
780762 TTGTATCGATACATGGTACA
1 TTGTATCGATACATGGTACA
780782 TTGTATCGATACATGGTACA
1 TTGTATCGATACATGGTACA
*
780802 TTGTATCGATACATGATGA-A
1 TTGTATCGATACATGGT-ACA
780822 TTGTATCGATACAT
1 TTGTATCGATACAT
780836 TGCTTCAAAC
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
20 51 0.98
21 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (20 bp):
TTGTATCGATACATGGTACA
Found at i:785439 original size:31 final size:31
Alignment explanation
Indices: 785404--785495 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 31
785394 CCCAAATAAC
785404 CCATTTTTCAACTTGATTACAACCTCACAAA
1 CCATTTTTCAACTTGATTACAACCTCACAAA
* *
785435 CCA--TTTC-CCTTCA-TACTATGACC-CA-ATAA
1 CCATTTTTCAACTTGATTAC-A--ACCTCACA-AA
785464 CCTATTTTTCAACTTGATTACAACCTCACAAA
1 CC-ATTTTTCAACTTGATTACAACCTCACAAA
785496 GGAGGTAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 21
0.65 0.06 0.30
Matches are distributed among these distances:
27 3 0.07
28 6 0.13
29 10 0.22
30 4 0.09
31 6 0.13
32 8 0.17
33 6 0.13
34 3 0.07
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (31 bp):
CCATTTTTCAACTTGATTACAACCTCACAAA
Found at i:785489 original size:61 final size:62
Alignment explanation
Indices: 785369--785495 Score: 238
Period size: 61 Copynumber: 2.1 Consensus size: 62
785359 TACACCACTC
785369 CAAACCATTTCCCTTCATACTATGACCCAAATAACCCATTTTTCAACTTGATTACAACCTCA
1 CAAACCATTTCCCTTCATACTATGACCCAAATAACCCATTTTTCAACTTGATTACAACCTCA
*
785431 CAAACCATTTCCCTTCATACTATGACCC-AATAACCTATTTTTCAACTTGATTACAACCTCA
1 CAAACCATTTCCCTTCATACTATGACCCAAATAACCCATTTTTCAACTTGATTACAACCTCA
785492 CAAA
1 CAAA
785496 GGAGGTAAAC
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
61 36 0.56
62 28 0.44
ACGTcount: A:0.35, C:0.31, G:0.03, T:0.31
Consensus pattern (62 bp):
CAAACCATTTCCCTTCATACTATGACCCAAATAACCCATTTTTCAACTTGATTACAACCTCA
Found at i:788442 original size:77 final size:76
Alignment explanation
Indices: 788138--788471 Score: 268
Period size: 77 Copynumber: 4.3 Consensus size: 76
788128 CTAAATACGG
* *
788138 GGTTGGAGTACTCCCGATGATGAAAAATTTAATATTTTTGAAATAAAAAC-GGAATTGGAGTAT-
1 GGTTGGAGTA-TCCCGA-GATGAAAAAATTAATA-TTTTGAAATAAAAACAGG--TTAGAGTATC
* * *
788201 CCCTAAAAAATAACGA
61 CCCTCAGAAATAATGA
** * * *
788217 GGTTAAAGTATCCTCAAGATG-AAAAATCAATATTTTTGGAAATAAAAACAGGGCTAGAGTATCC
1 GGTTGGAGTATCC-CGAGATGAAAAAATTAATA-TTTT-GAAATAAAAACA-GGTTAGAGTATCC
*
788281 TCTC-GAAAATAAT-A
62 CCTCAG-AAATAATGA
** * *
788295 GGATTGGAGTA-CCCCCGA-GAAAAATTTAATATTTTGAAAATAAAAACGAGGTTGGAGTATCCC
1 GG-TTGGAGTATCCCGAGATGAAAAAATTAATATTTTG-AAATAAAAAC-AGGTTAGAGTATCCC
* *
788358 CTTAGAATTAATGA
63 CTCAGAAATAATGA
** *
788372 GGTTGGAGTATCCCGAGATGAAAAAATTAGCATTTTAGAAATAAAAGCAGGTTAGAGTATCCCCT
1 GGTTGGAGTATCCCGAGATGAAAAAATTAATATTTT-GAAATAAAAACAGGTTAGAGTATCCCCT
* * *
788437 CAGAATTGATGG
65 CAGAAATAATGA
*
788449 GGTTAGAGTATCCTCGAGATGAA
1 GGTTGGAGTATCC-CGAGATGAA
788472 TAATTGATGC
Statistics
Matches: 206, Mismatches: 33, Indels: 33
0.76 0.12 0.12
Matches are distributed among these distances:
75 1 0.00
76 42 0.20
77 73 0.35
78 62 0.30
79 26 0.13
80 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.27
Consensus pattern (76 bp):
GGTTGGAGTATCCCGAGATGAAAAAATTAATATTTTGAAATAAAAACAGGTTAGAGTATCCCCTC
AGAAATAATGA
Found at i:792941 original size:21 final size:21
Alignment explanation
Indices: 792916--792956 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
792906 TGTAAATTTA
792916 TAAATTTTATAATTTA-AATAT
1 TAAA-TTTATAATTTATAATAT
*
792937 TAAATTTATTATTTATAATA
1 TAAATTTATAATTTATAATA
792957 AATTAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TAAATTTATAATTTATAATAT
Found at i:793158 original size:17 final size:17
Alignment explanation
Indices: 793128--793166 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
793118 TTAAAAAATT
*
793128 TATTTTATAAATTTAAA
1 TATTTAATAAATTTAAA
*
793145 TATTTAATAGATTTAAA
1 TATTTAATAAATTTAAA
793162 TATTT
1 TATTT
793167 TACATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TATTTAATAAATTTAAA
Found at i:793213 original size:14 final size:13
Alignment explanation
Indices: 793180--793222 Score: 63
Period size: 14 Copynumber: 3.4 Consensus size: 13
793170 ATATATTATC
793180 TAAA-TTAAAT-A
1 TAAATTTAAATAA
793191 TAAATTTAAATAA
1 TAAATTTAAATAA
793204 TAATATTTAAATAA
1 TAA-ATTTAAATAA
793218 TAAAT
1 TAAAT
793223 AAATTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.14
12 6 0.21
13 6 0.21
14 13 0.45
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAATTTAAATAA
Found at i:793756 original size:34 final size:35
Alignment explanation
Indices: 793691--793774 Score: 93
Period size: 34 Copynumber: 2.4 Consensus size: 35
793681 TTAATGGTAG
*
793691 TATAATAATTTAATTATTAAATAAATAAATTTAAAA
1 TATAA-AATTAAATTATTAAATAAATAAATTTAAAA
* *
793727 T-TAAAATTAAATTATTATGATAAAT-AATTTTAAA
1 TATAAAATTAAATTATTA-AATAAATAAATTTAAAA
*
793761 TATAAGA-TAAATTA
1 TATAAAATTAAATTA
793775 AGATATAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
34 28 0.67
35 13 0.31
36 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (35 bp):
TATAAAATTAAATTATTAAATAAATAAATTTAAAA
Found at i:794372 original size:20 final size:20
Alignment explanation
Indices: 794349--794387 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
794339 TTTTTTTTTT
*
794349 TTTTTCATTT-TTTCTTTCTC
1 TTTTTC-TTTCTTTCATTCTC
794369 TTTTTCTTTCTTTCATTCT
1 TTTTTCTTTCTTTCATTCT
794388 TCTTAGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTCTTTCTTTCATTCTC
Found at i:799352 original size:13 final size:13
Alignment explanation
Indices: 799334--799359 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
799324 TACACCAAGT
799334 ATGTATCGATACA
1 ATGTATCGATACA
799347 ATGTATCGATACA
1 ATGTATCGATACA
799360 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:799357 original size:32 final size:33
Alignment explanation
Indices: 799316--799379 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
799306 TAGCCAAACT
* **
799316 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
799348 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
799380 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:801322 original size:20 final size:20
Alignment explanation
Indices: 801299--801371 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
801289 ACAATTCAAA
801299 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*
801319 GTATCGATACATGAAAATG--AT
1 GTATCGATACATG---TTGCAAT
801340 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*
801360 GTATTGATACAT
1 GTATCGATACAT
801372 AAAAAAGATG
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
18 2 0.04
20 26 0.58
21 15 0.33
23 2 0.04
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:801343 original size:21 final size:21
Alignment explanation
Indices: 801317--801392 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
801307 ACATGTTGCA
801317 ATGTATCGATACATGAAAATG
1 ATGTATCGATACATGAAAATG
*
801338 ATGTATCGATACATG---TTG
1 ATGTATCGATACATGAAAATG
* * *
801356 CAATGTATTGATACATAAAAAAG
1 --ATGTATCGATACATGAAAATG
801379 ATGTATCGATACAT
1 ATGTATCGATACAT
801393 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
18 2 0.05
20 13 0.30
21 28 0.64
23 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACATGAAAATG
Found at i:801350 original size:41 final size:41
Alignment explanation
Indices: 801299--801392 Score: 161
Period size: 41 Copynumber: 2.3 Consensus size: 41
801289 ACAATTCAAA
* *
801299 GTATCGATACATGTTGCAATGTATCGATACATGAAAATGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
801340 GTATCGATACATGTTGCAATGTATTGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
801381 GTATCGATACAT
1 GTATCGATACAT
801393 TTCTTGGCAG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:801449 original size:13 final size:13
Alignment explanation
Indices: 801431--801456 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
801421 TACAGCAAGT
801431 ATGTATCGATACA
1 ATGTATCGATACA
801444 ATGTATCGATACA
1 ATGTATCGATACA
801457 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:803703 original size:21 final size:21
Alignment explanation
Indices: 803670--803714 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
803660 TTGCAAGTTG
*
803670 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
803692 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
803712 AAA
1 AAA
803715 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:807564 original size:20 final size:20
Alignment explanation
Indices: 807495--807605 Score: 76
Period size: 20 Copynumber: 5.7 Consensus size: 20
807485 AATGTCCAAA
807495 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACAT-TTTTCT
* *
807515 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
807540 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
807560 TTGTATCGATACA-------
1 ATGTATCGATACATTTTTCT
807573 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
807593 TTGTATCGATACA
1 ATGTATCGATACA
807606 ATGTATCGAT
Statistics
Matches: 71, Mismatches: 8, Indels: 24
0.69 0.08 0.23
Matches are distributed among these distances:
13 12 0.17
20 42 0.59
24 3 0.04
25 14 0.20
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:807579 original size:13 final size:13
Alignment explanation
Indices: 807561--807585 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
807551 CATTTTTCTT
807561 TGTATCGATACAA
1 TGTATCGATACAA
807574 TGTATCGATACA
1 TGTATCGATACA
807586 TTTTTCTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:807582 original size:33 final size:33
Alignment explanation
Indices: 807540--807618 Score: 158
Period size: 33 Copynumber: 2.4 Consensus size: 33
807530 TGGAAATTCT
807540 ATGTATCGATACATTTTTCTTTGTATCGATACA
1 ATGTATCGATACATTTTTCTTTGTATCGATACA
807573 ATGTATCGATACATTTTTCTTTGTATCGATACA
1 ATGTATCGATACATTTTTCTTTGTATCGATACA
807606 ATGTATCGATACA
1 ATGTATCGATACA
807619 CTGTATCGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (33 bp):
ATGTATCGATACATTTTTCTTTGTATCGATACA
Found at i:807612 original size:13 final size:13
Alignment explanation
Indices: 807594--807631 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
807584 CATTTTTCTT
807594 TGTATCGATACAA
1 TGTATCGATACAA
*
807607 TGTATCGATACAC
1 TGTATCGATACAA
807620 TGTATCGATACA
1 TGTATCGATACA
807632 GGGTGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:810108 original size:20 final size:20
Alignment explanation
Indices: 810085--810157 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
810075 ACAATTCAAA
810085 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*
810105 GTATCGATACATGAAAATG--AT
1 GTATCGATACATG---TTGCAAT
810126 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
810146 GTATCGATACAT
1 GTATCGATACAT
810158 AAAAAAGATG
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
20 27 0.59
21 15 0.33
23 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:810129 original size:21 final size:21
Alignment explanation
Indices: 810103--810178 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
810093 ACATGTTGCA
810103 ATGTATCGATACATGAAAATG
1 ATGTATCGATACATGAAAATG
*
810124 ATGTATCGATACATG---TTG
1 ATGTATCGATACATGAAAATG
* *
810142 CAATGTATCGATACATAAAAAAG
1 --ATGTATCGATACATGAAAATG
810165 ATGTATCGATACAT
1 ATGTATCGATACAT
810179 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
18 2 0.04
20 14 0.30
21 29 0.63
23 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAATG
Found at i:810136 original size:41 final size:41
Alignment explanation
Indices: 810085--810178 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
810075 ACAATTCAAA
* *
810085 GTATCGATACATGTTGCAATGTATCGATACATGAAAATGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
810126 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
810167 GTATCGATACAT
1 GTATCGATACAT
810179 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:810217 original size:13 final size:13
Alignment explanation
Indices: 810199--810223 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
810189 TAGCCAAACT
810199 TGTATCGATACAA
1 TGTATCGATACAA
810212 TGTATCGATACA
1 TGTATCGATACA
810224 CAAAAAATTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:814460 original size:28 final size:28
Alignment explanation
Indices: 814357--814962 Score: 627
Period size: 28 Copynumber: 20.9 Consensus size: 28
814347 CTTTTAAAAT
*
814357 GTGCCACTAACTTGTGTGGGCTTTGAAAAGAG
1 GTGCCACTGAC-T-TGTGGGCTTTG-AAAG-G
* *
814389 TTGCCACTGACTCGTGTGGGCTTTGAAAAGA
1 GTGCCACTGACT--TGTGGGCTTTG-AAAGG
*
814420 GTGCCATTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
814448 GTGCCACTAACTTGTGAGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
814476 ATGCCACTAACTTATGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
* * *
814505 GTGCACTCTAACTTGTTGGCTTTGAAAGG
1 GTGC-CACTGACTTGTGGGCTTTGAAAGG
*
814534 GTGCCACTGACTTATGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * * * *
814562 ATACCACTGACTTGTGAGATTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
814591 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
814619 GTGCCATTGACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
814647 GTGCCACTGACTTGTGGGCTTTAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
814675 GTGCCATTGACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
814703 GTGCCACTAACTTATGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
814731 GTACTACTGACTTGTAGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
814759 GTGCCACTGACTTGTAGGTTTTAAAAAGA
1 GTGCCACTGACTTGTGGGCTTT-GAAAGG
*
814788 GTGCCCCTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
** * *
814816 GTGCCACAAACTTGTGGGCTTTAAAAAGA
1 GTGCCACTGACTTGTGGGCTTT-GAAAGG
* *
814845 ATGCCACTGACTTGTGGGCTTTGAAAAG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
814873 GTGCCACTAACTTGTGGGCTTTGAAATGG
1 GTGCCACTGACTTGTGGGCTTTGAAA-GG
* *
814902 GTTGCCACCGATTTGTGTGGGCTTTGAAATGG
1 G-TGCCACTGA-CT-TGTGGGCTTTGAAA-GG
**
814934 GTTGCCACCAACTTGTGTGGGCTTTGAAA
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAA
814963 TGAGATGAAC
Statistics
Matches: 484, Mismatches: 79, Indels: 22
0.83 0.14 0.04
Matches are distributed among these distances:
28 283 0.58
29 97 0.20
30 23 0.05
31 12 0.02
32 69 0.14
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:814498 original size:56 final size:56
Alignment explanation
Indices: 814358--814962 Score: 586
Period size: 57 Copynumber: 10.4 Consensus size: 56
814348 TTTTAAAATG
* *
814358 TGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGTGGGCTTTGAAAAGA
1 TGCCACTAAC-T-TGTGGGCTTTG-AAAG-GGTGCCACTGACT--TGTGGGCTTTGAAAGGA
* * * *
814420 GTGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGAGCTTTGAAAGGA
1 -TGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * * *
814477 TGCCACTAACTTATGGGCTTTGAAAAGAGTGCACTCTAACTTGTTGGCTTTGAAAGGG
1 TGCCACTAACTTGTGGGCTTTG-AAAGGGTGC-CACTGACTTGTGGGCTTTGAAAGGA
* * * * * * *
814535 TGCCACTGACTTATGGGCTTTGAAAGGATACCACTGACTTGTGAGATTTGAAAAGA
1 TGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGA
* *
814591 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCATTGACTTGTGGGCTTTGAAA-GA
1 -TGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
814647 GTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCATTGACTTGTGGGCTTTGAAA-GA
1 -TGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * *
814703 GTGCCACTAACTTATGGGCTTTGAAAGGGTACTACTGACTTGTAGGCTTTGAAAGGG
1 -TGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGA
* * * * * * *
814760 TGCCACTGACTTGTAGGTTTTAAAAAGAGTGCCCCTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTAACTTGTGGGCTTT-GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGA
* * **
814817 TGCCACAAACTTGTGGGCTTTAAAAAGAATGCCACTGACTTGTGGGCTTTGAAAAGG-
1 TGCCACTAACTTGTGGGCTTT-GAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGA
* * *
814874 TGCCACTAACTTGTGGGCTTTGAAATGGGTTGCCACCGATTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTAACTTGTGGGCTTTGAAA-GGG-TGCCACTGA-CT-TGTGGGCTTTGAAA--GGA
*
814936 TGCCACCAACTTGTGTGGGCTTTGAAA
1 TGCCACTAAC-T-TGTGGGCTTTGAAA
814963 TGAGATGAAC
Statistics
Matches: 464, Mismatches: 63, Indels: 29
0.83 0.11 0.05
Matches are distributed among these distances:
56 161 0.35
57 172 0.37
58 55 0.12
59 15 0.03
60 15 0.03
61 13 0.03
62 10 0.02
63 9 0.02
64 14 0.03
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (56 bp):
TGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGA
Found at i:816192 original size:25 final size:25
Alignment explanation
Indices: 816178--816252 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
816168 TTTGTTATTT
816178 TTTTCTTGGTTTTTTGTTTTTTTTA
1 TTTTCTTGGTTTTTTGTTTTTTTTA
* * *
816203 TTTTTTTGGTTTTTTCCTTTTTTTGTT
1 TTTTCTTGGTTTTTT-GTTTTTTT-TA
*
816230 TTTTC-T-GTTTTTTAATTTTTTTT
1 TTTTCTTGGTTTTTT-GTTTTTTTT
816253 TGGTATGAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
24 1 0.02
25 28 0.67
26 8 0.19
27 5 0.12
ACGTcount: A:0.04, C:0.05, G:0.09, T:0.81
Consensus pattern (25 bp):
TTTTCTTGGTTTTTTGTTTTTTTTA
Found at i:816199 original size:9 final size:9
Alignment explanation
Indices: 816164--816242 Score: 54
Period size: 9 Copynumber: 8.6 Consensus size: 9
816154 CCCCTTTCTA
816164 TTTTTTTGTT
1 TTTTTTTG-T
*
816174 ATTTTTTTCT
1 -TTTTTTTGT
816184 TGGTTTTTTGT
1 T--TTTTTTGT
*
816195 TTTTTTT-A
1 TTTTTTTGT
816203 TTTTTTTG-
1 TTTTTTTGT
* **
816211 GTTTTTTCC
1 TTTTTTTGT
816220 TTTTTTTGT
1 TTTTTTTGT
*
816229 TTTTTCTGT
1 TTTTTTTGT
816238 TTTTT
1 TTTTT
816243 AATTTTTTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
8 13 0.24
9 26 0.47
10 1 0.02
11 15 0.27
ACGTcount: A:0.03, C:0.05, G:0.10, T:0.82
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:816200 original size:8 final size:8
Alignment explanation
Indices: 816164--816242 Score: 63
Period size: 8 Copynumber: 9.8 Consensus size: 8
816154 CCCCTTTCTA
816164 TTTTTTTG
1 TTTTTTTG
*
816172 -TTATTT-
1 TTTTTTTG
*
816178 TTTTCTTG
1 TTTTTTTG
*
816186 GTTTTTTG
1 TTTTTTTG
*
816194 TTTTTTTTA
1 -TTTTTTTG
816203 TTTTTTTGG
1 TTTTTTT-G
**
816212 TTTTTTCC
1 TTTTTTTG
816220 TTTTTTTG
1 TTTTTTTG
816228 TTTTTTCTG
1 TTTTTT-TG
816237 TTTTTT
1 TTTTTT
816243 AATTTTTTTT
Statistics
Matches: 54, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
7 9 0.17
8 25 0.46
9 20 0.37
ACGTcount: A:0.03, C:0.05, G:0.10, T:0.82
Consensus pattern (8 bp):
TTTTTTTG
Found at i:816207 original size:17 final size:17
Alignment explanation
Indices: 816187--816252 Score: 69
Period size: 17 Copynumber: 3.9 Consensus size: 17
816177 TTTTTCTTGG
816187 TTTTTTGTTTTTTTTAT
1 TTTTTTGTTTTTTTTAT
* **
816204 TTTTTTGGTTTTTTCCT
1 TTTTTTGTTTTTTTTAT
* *
816221 TTTTTTGTTTTTTCTGT
1 TTTTTTGTTTTTTTTAT
**
816238 TTTTTAATTTTTTTT
1 TTTTTTGTTTTTTTT
816253 TGGTATGAAG
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.05, C:0.05, G:0.08, T:0.83
Consensus pattern (17 bp):
TTTTTTGTTTTTTTTAT
Found at i:826021 original size:52 final size:52
Alignment explanation
Indices: 825943--826071 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
825933 CGAAATATGA
* *
825943 AAATTTACTTGCATGTATCGATACATTTAATAGTGTATCGATACACCTGGGC
1 AAATTTGCTTGCATGTATCGATACATTTAATAATGTATCGATACACCTGGGC
* * *
825995 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCTTGCATGTATCGATACATTTAATAATGTATCGATACACCTGGGC
826047 AAATTTGCTTGCATGTATCGATACA
1 AAATTTGCTTGCATGTATCGATACA
826072 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCTTGCATGTATCGATACATTTAATAATGTATCGATACACCTGGGC
Found at i:826186 original size:13 final size:13
Alignment explanation
Indices: 826168--826192 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
826158 AAAAAAAATA
826168 TGTATCGATACAT
1 TGTATCGATACAT
826181 TGTATCGATACA
1 TGTATCGATACA
826193 AAAAAAATAT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:826188 original size:34 final size:34
Alignment explanation
Indices: 826145--826227 Score: 166
Period size: 34 Copynumber: 2.4 Consensus size: 34
826135 AGTAGCTTAA
826145 ATTGTATCGATACAAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAAATATGTATCGATAC
826179 ATTGTATCGATACAAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAAATATGTATCGATAC
826213 ATTGTATCGATACAA
1 ATTGTATCGATACAA
826228 CACTTTATGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (34 bp):
ATTGTATCGATACAAAAAAAATATGTATCGATAC
Found at i:826220 original size:13 final size:13
Alignment explanation
Indices: 826202--826226 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
826192 AAAAAAAATA
826202 TGTATCGATACAT
1 TGTATCGATACAT
826215 TGTATCGATACA
1 TGTATCGATACA
826227 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:832879 original size:13 final size:13
Alignment explanation
Indices: 832861--832886 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
832851 AATTTTTTTG
832861 TGTATCGATACAT
1 TGTATCGATACAT
832874 TGTATCGATACAT
1 TGTATCGATACAT
832887 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:833471 original size:20 final size:20
Alignment explanation
Indices: 833446--833498 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
833436 GTTATAAGCA
*
833446 ATGTATCGATACATT-TCATC
1 ATGTATCGATACATTGT-ACC
833466 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
833486 ATGTATCGATACA
1 ATGTATCGATACA
833499 AATAGTGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:833553 original size:20 final size:20
Alignment explanation
Indices: 833528--833582 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
833518 CTGCCAGTTT
**
833528 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
* *
833548 CATGTATCGATA-TAGTGAA
1 CATGTATCGATACAATTGAA
833567 CATGTATCGATACAAT
1 CATGTATCGATACAAT
833583 GTATCGATAC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:833586 original size:13 final size:13
Alignment explanation
Indices: 833568--833594 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
833558 TATAGTGAAC
833568 ATGTATCGATACA
1 ATGTATCGATACA
833581 ATGTATCGATACA
1 ATGTATCGATACA
833594 A
1 A
833595 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:838060 original size:13 final size:13
Alignment explanation
Indices: 838042--838067 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
838032 ACATTTTGGG
838042 ATGTATCGATACA
1 ATGTATCGATACA
838055 ATGTATCGATACA
1 ATGTATCGATACA
838068 TATTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:838062 original size:33 final size:32
Alignment explanation
Indices: 838020--838087 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
838010 CGTTACAAGC
*
838020 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATATTGGG-TGTATCGATA
*
838053 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGGGTGTATCGATA
838085 CAA
1 CAA
838088 ACAGTTAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTGGGTGTATCGATA
Found at i:838164 original size:20 final size:21
Alignment explanation
Indices: 838117--838169 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
838107 ACCAATCACC
*
838117 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
838138 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
838158 TGTATCGATACA
1 TGTATCGATACA
838170 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 14 0.50
21 13 0.46
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:838175 original size:13 final size:13
Alignment explanation
Indices: 838157--838181 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
838147 ACATTTGGTC
838157 ATGTATCGATACA
1 ATGTATCGATACA
838170 ATGTATCGATAC
1 ATGTATCGATAC
838182 TATGCATTAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:839697 original size:25 final size:23
Alignment explanation
Indices: 839651--839695 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
839641 TCTCATTGCC
*
839651 TTTATTTTAAAAAAAATTAAATT
1 TTTATTTTAAAAAAAATAAAATT
*
839674 TTTATTTATTAAAAAAATAAAA
1 TTTATTT-TAAAAAAAATAAAA
839696 ATCTTAAGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTATTTTAAAAAAAATAAAATT
Found at i:840138 original size:156 final size:156
Alignment explanation
Indices: 839969--840308 Score: 359
Period size: 155 Copynumber: 2.2 Consensus size: 156
839959 AGCGGACCTG
* * * * * *
839969 GTGATAACATAGGACTCGATTTTAAAAAAAATACTAAAATAC-CCTAGGGGATACC-TTCGATGT
1 GTGACAACCTAGGACTCGGTTTTAAAAAAAATACGAAAATACACCTAAGGGATACCATT-GACGT
* * *
840032 AAAAGTATCCTGGTACCCCTAAAGGACTTAAAAAGGATAATAGAT-GGGTTGAAACTATCCTAAA
65 AAAAGT-GCCCGATACCCCTAAAGGACTTAAAAAGGATAA-AGATGGGGTTGAAACTATCCTAAA
* *
840096 TACCTACCTTT-GGCATAAAAGTAG-ACCCA
128 TACCCA-CTTTCGACATAAAAG-AGAACCCA
* * ** * *
840125 GTGACAACCTAGGAGTTGGTTTT-GGAAAATTACGAAAATGCACCTAAGGGATACCATTGACGTA
1 GTGACAACCTAGGACTCGGTTTTAAAAAAAATACGAAAATACACCTAAGGGATACCATTGACGTA
* * * * * * *
840189 GAAGTGCCCGATACCCTTAAAGGACTTAAAAAGGTTTAAGATGGGGTTGAACCTATCTTAAATGC
66 AAAGTGCCCGATACCCCTAAAGGACTTAAAAAGGATAAAGATGGGGTTGAAACTATCCTAAATAC
* *
840254 CCACTTTCGACATAAAAGCGAACCTA
131 CCACTTTCGACATAAAAGAGAACCCA
840280 GTGACAACCTAGGACTCGGTTTTAAAAAA
1 GTGACAACCTAGGACTCGGTTTTAAAAAA
840309 TAACAAAAAT
Statistics
Matches: 148, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
154 9 0.06
155 95 0.64
156 42 0.28
157 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (156 bp):
GTGACAACCTAGGACTCGGTTTTAAAAAAAATACGAAAATACACCTAAGGGATACCATTGACGTA
AAAGTGCCCGATACCCCTAAAGGACTTAAAAAGGATAAAGATGGGGTTGAAACTATCCTAAATAC
CCACTTTCGACATAAAAGAGAACCCA
Found at i:840975 original size:145 final size:144
Alignment explanation
Indices: 840725--841100 Score: 332
Period size: 145 Copynumber: 2.5 Consensus size: 144
840715 AATCATTTCG
* * * *
840725 TACCTTAATGGAAGCTCAAAAAGATACGAAAAATTTTTAGAACCTTATTGCCCTTACGGATGCCT
1 TACCTTAATGGAAGCTCAAAAAAATACGAAAAATTTTTAGAACCTTATTACCCTTACGAATGCCC
* ** * *
840790 ATAGGAATATTAAAAATCCTTAATTATTAATGTAATAAAATCTTTATTATTATCCATTTTTTATT
66 ATAGGAATATTAAAAATCCTTAATCACCAACGTAAAAAAATCTTTATTATTATCCATTTTTTATT
840855 TAAAATTCATCTCA
131 TAAAATTCATCTCA
* * *
840869 TACCTTAATGGATG-TCCGAAAAAAATAC-AAAATTTTTTTAGGACCTTATTACTCC-TACGAAT
1 TACCTTAATGGAAGCT-C-AAAAAAATACGAAAA-ATTTTTAGAACCTTATTAC-CCTTACGAAT
* *
840931 GCCCATAGGAATATT-AAAATCCTTAATCACCAGCGTAAAAAAAATCTTTATTATTGTTATCTAT
62 GCCCATAGGAATATTAAAAATCCTTAATCACCAACGT-AAAAAAATCTTTATTA---TTATCCA-
* *
840995 TTTATTTTTTTTTCAAAATTCATCTCG
122 --T-TTTTTATTT-AAAATTCATCTCA
* * * * * * * * *
841022 TACATTAATGGAAGCCCGAAAAGAT-CCAAGAAGTTTTAAAATCTT-TTACACCTCTACGAATGC
1 TACCTTAATGGAAGCTCAAAAAAATACGAAAAATTTTTAGAACCTTATTAC-CCT-TACGAATGC
* *
841085 CAATAGCAATATTAAA
64 CCATAGGAATATTAAA
841101 GATTGCAAAA
Statistics
Matches: 184, Mismatches: 30, Indels: 27
0.76 0.12 0.11
Matches are distributed among these distances:
143 1 0.01
144 34 0.18
145 60 0.33
146 2 0.01
148 6 0.03
150 6 0.03
151 11 0.06
152 37 0.20
153 27 0.15
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (144 bp):
TACCTTAATGGAAGCTCAAAAAAATACGAAAAATTTTTAGAACCTTATTACCCTTACGAATGCCC
ATAGGAATATTAAAAATCCTTAATCACCAACGTAAAAAAATCTTTATTATTATCCATTTTTTATT
TAAAATTCATCTCA
Found at i:842296 original size:23 final size:21
Alignment explanation
Indices: 842235--842296 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 21
842225 AAATTTCCAA
*
842235 TTTTCTCTCTATTTTTT-CTCT
1 TTTTCTCTCT-TTTTTTCCTCC
*
842256 TTTTCTTTCTTTTCTTTCCCTCC
1 TTTTCTCTCTTTT-TTT-CCTCC
842279 TTTTCTCTCTTCTTTTTC
1 TTTTCTCTCTT-TTTTTC
842297 AGTTGAACTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 3 0.09
21 12 0.35
22 1 0.03
23 16 0.47
24 2 0.06
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTCTCTCTTTTTTTCCTCC
Found at i:843001 original size:167 final size:162
Alignment explanation
Indices: 842584--843232 Score: 571
Period size: 167 Copynumber: 3.9 Consensus size: 162
842574 GATATATACA
* * * * ** **
842584 AAAAAATTTAAAATTTATG-AAATAAATTGAATTTTTCAAAACGAATTTAATGGGAGTTAAATAA
1 AAAAAATTTAAAACTCATGCAAATAAA-TGAATTTTTGAAAACTAATTTAATATGAAATAAATAA
* * * * * * *
842648 CA-ATATTAGATGAATTTTAAAATTTTTAAATCAAGAAAAATCCCCCCAAAAATATTTATGGAAT
65 -ATATATTTGATGAATTTTAAAA-TATAAAACCAAGAAAAATCTCCCCAAAAAAATTTACGGAAT
*
842712 AGAAAACTC-G-ACTTTTCAAAAATAGTCGCATTTCAAGG
128 AGAAAACTCTGTA--TTTCAAAAA-A-T-GAATTTCAAGG
* * * * ** *
842750 AAAAAATTAAAAAATCATGAAAATAAATGAATTTTTAAAAACTAATTTAATACAAAATAAAAAAA
1 AAAAAATTTAAAACTCATGCAAATAAATGAATTTTTGAAAACTAATTTAATATGAAATAAATAAA
* * * * *
842815 TCTATTTGATGAATTTTAAAA-ATAAAATGCCAATAAAAATCTCCCCGAAAAGATTTATGGAATA
66 TATATTTGATGAATTTTAAAATATAAAA--CCAAGAAAAATCTCCCCAAAAAAATTTACGGAATA
*
842879 GAAAACTCTGTATTTCGGAAACAAATGTATTTCAAGG
129 GAAAACTCTGTATTTC--AAA-AAATGAATTTCAAGG
* *
842916 AAAAAATTTCAAAACTCATGCAAACAAATGAATTTTTGAAAATTAATTTAATATGAAATAAATAA
1 AAAAAATTT-AAAACTCATGCAAATAAATGAATTTTTGAAAACTAATTTAATATGAAATAAATAA
** * *
842981 ATATATTTGATGAATTTTAAAA-ATTAAAAACCAAGAAAAATCTCCTTAAAAACATTTACGGAGT
65 ATATATTTGATGAATTTTAAAATA-T-AAAACCAAGAAAAATCTCCCCAAAAAAATTTACGGAAT
* * *
843045 AGAAAATTCTATATTTCAAGAATAAGGAAATTTCAAGG
128 AGAAAACTCTGTATTTCAA-AA-AATG-AATTTCAAGG
* * * *
843083 AAAAAATATTAAAACTCATGCAAATAAATTAATTTTTGAAAACTTATTTAATAGTG-ATTATAT-
1 AAAAAAT-TTAAAACTCATGCAAATAAATGAATTTTTGAAAACTAATTTAATA-TGAAATAAATA
* * *
843146 AATAATATTTGATGAA-TTTAAAATTTATAAACCAAGAAAAATC-CTCTCGAAAAAATTTACGGA
64 AAT-ATATTTGATGAATTTTAAAATATA-AAACCAAGAAAAATCTC-CCCAAAAAAATTTACGGA
* * *
843209 AAAGAAAACCCTGTAATTTGAAAA
126 ATAGAAAACTCTGT-ATTTCAAAA
843233 CAAAAAGAAT
Statistics
Matches: 403, Mismatches: 58, Indels: 44
0.80 0.11 0.09
Matches are distributed among these distances:
164 4 0.01
165 6 0.01
166 179 0.44
167 198 0.49
168 10 0.02
169 6 0.01
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.31
Consensus pattern (162 bp):
AAAAAATTTAAAACTCATGCAAATAAATGAATTTTTGAAAACTAATTTAATATGAAATAAATAAA
TATATTTGATGAATTTTAAAATATAAAACCAAGAAAAATCTCCCCAAAAAAATTTACGGAATAGA
AAACTCTGTATTTCAAAAAATGAATTTCAAGG
Found at i:843217 original size:333 final size:329
Alignment explanation
Indices: 842584--843236 Score: 703
Period size: 333 Copynumber: 2.0 Consensus size: 329
842574 GATATATACA
* * * * **
842584 AAAAAATTTAAAATTTATGAAATAAATTGAATTTTTCAAAACGAATTTAATGGGAGTTAAATAAC
1 AAAAAATTTAAAACTCATGAAACAAATTGAATTTTTCAAAACGAATTTAATAGGAAATAAATAAC
* ** * * *
842649 AATATTAGATGAATTTTAAAATTTTTAAATCAAGAAAAATCCCCCCAAAAATATTTATGGAATAG
66 AATATTAGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCCAAAAACATTTACGGAATAG
*
842714 AAAACTCGACTTTTCAAAAATAGTCGCATTTCAAGGAAAAAATTAAAAAATCATGAAAATAAATG
131 AAAACTCGACTTTTCAAAAATAG-CGAATTTCAAGGAAAAAATTAAAAAATCATGAAAATAAATG
842779 AATTTTTAAAAACTAATTTAATACAAAATAAAAAAATCTATTTGATGAATTTTAAAAATAAAATG
195 AATTTTTAAAAACTAATTTAATACAAAATAAAAAAA-CTATTTGATGAATTTTAAAAATAAAA-G
* * * * * *
842844 CCAATAAAAATCTCCCCGAAAAGATTTATGGAATAGAAAACTCTGT-ATTTCGGAAACAAATGTA
258 CCAAGAAAAATCTCCCCGAAAAAATTTACGGAAAAGAAAACCCTGTAATTT-GAAAACAAATGTA
842908 TTTCAAGG
322 TTTCAAGG
* ** *
842916 AAAAAATTTCAAAACTCATGCAAACAAA-TGAATTTTTGAAAATTAATTTAATATGAAATAAATA
1 AAAAAATTT-AAAACTCATG-AAACAAATTGAATTTTTCAAAACGAATTTAATAGGAAATAAATA
* * ** *
842980 A-ATATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCCTTAAAAACATTTACGGAG
64 ACA-ATATTAGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCCAAAAACATTTACGGAA
* * * * * *
843044 TAGAAAATTCTA-TATTTCAAGAATAAG-GAAATTTCAAGGAAAAAATATTAAAACTCATGCAAA
128 TAGAAAACTCGACT-TTTCAAAAAT-AGCG-AATTTCAAGGAAAAAAT-TAAAAAATCATGAAAA
* * * * ** * *
843107 TAAATTAATTTTTGAAAACTTATTTAATAGTGATTATATAATAA-TATTTGATGAA-TTTAAAAT
189 TAAATGAATTTTTAAAAACTAATTTAATA--CAAAATAAAAAAACTATTTGATGAATTTTAAAA-
* *
843170 TTATAAA-CCAAGAAAAATC-CTCTCGAAAAAATTTACGGAAAAGAAAACCCTGTAATTTGAAAA
251 ATA-AAAGCCAAGAAAAATCTC-CCCGAAAAAATTTACGGAAAAGAAAACCCTGTAATTTGAAAA
843233 CAAA
314 CAAA
843237 AAGAATTCCA
Statistics
Matches: 264, Mismatches: 44, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
332 13 0.05
333 176 0.67
334 64 0.24
335 3 0.01
336 8 0.03
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.31
Consensus pattern (329 bp):
AAAAAATTTAAAACTCATGAAACAAATTGAATTTTTCAAAACGAATTTAATAGGAAATAAATAAC
AATATTAGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCCAAAAACATTTACGGAATAG
AAAACTCGACTTTTCAAAAATAGCGAATTTCAAGGAAAAAATTAAAAAATCATGAAAATAAATGA
ATTTTTAAAAACTAATTTAATACAAAATAAAAAAACTATTTGATGAATTTTAAAAATAAAAGCCA
AGAAAAATCTCCCCGAAAAAATTTACGGAAAAGAAAACCCTGTAATTTGAAAACAAATGTATTTC
AAGG
Found at i:843724 original size:11 final size:11
Alignment explanation
Indices: 843705--843735 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
843695 AAGGCTAATT
843705 TTTTA-AAAAA
1 TTTTAGAAAAA
843715 TTTTAGAAAAA
1 TTTTAGAAAAA
843726 TTTTAGAAAA
1 TTTTAGAAAA
843736 TTCTCAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (11 bp):
TTTTAGAAAAA
Found at i:849798 original size:80 final size:80
Alignment explanation
Indices: 849688--849847 Score: 216
Period size: 80 Copynumber: 2.0 Consensus size: 80
849678 TTTTCACTGC
*
849688 CATTTTTTCATCTAAACCATACCTTTCTTTTCATTTTGCCTTTTAAAACATCTGAATCTACGTAT
1 CATTTTTTCATCT-AACCATACCTTTCTTTTCATTTTGCCTTTTAAAACATCTGAATCCACGTAT
*
849753 AA-TGTTTTCTTCCTTT
65 AACT-TTTTCATCCTTT
* * * * *
849769 CATTTTTTCATCT-ACGCTTATCTTTCTTTTCATTTTGCCTTTTAAAATATTTGAATCCATGTAT
1 CATTTTTTCATCTAAC-CATACCTTTCTTTTCATTTTGCCTTTTAAAACATCTGAATCCACGTAT
849833 AACTTTTTCATCCTT
65 AACTTTTTCATCCTT
849848 CTCCATCTTC
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
79 2 0.03
80 54 0.77
81 14 0.20
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (80 bp):
CATTTTTTCATCTAACCATACCTTTCTTTTCATTTTGCCTTTTAAAACATCTGAATCCACGTATA
ACTTTTTCATCCTTT
Found at i:851013 original size:17 final size:17
Alignment explanation
Indices: 850991--851024 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
850981 AAAATGAAAC
*
850991 AGTAACAAGGTGAACAT
1 AGTAACAAGGTAAACAT
851008 AGTAACAAGGTAAACAT
1 AGTAACAAGGTAAACAT
851025 CGTCACGACG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.18
Consensus pattern (17 bp):
AGTAACAAGGTAAACAT
Found at i:852892 original size:17 final size:18
Alignment explanation
Indices: 852853--852894 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
852843 TTTTACTTCT
**
852853 ATTATTTTTTATTTAATT
1 ATTATTTTTTATTTAAAA
*
852871 TTTATTTTTTA-TTAAAA
1 ATTATTTTTTATTTAAAA
852888 ATTATTT
1 ATTATTT
852895 CATACCCGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTATTTTTTATTTAAAA
Found at i:855269 original size:20 final size:19
Alignment explanation
Indices: 855225--855279 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
855215 ATTGATACAT
** *
855225 TGTATCGATACATGTTCAT
1 TGTATCGATACATGAACAA
855244 TGTATCGATACATGAACAAA
1 TGTATCGATACATGAAC-AA
*
855264 TGTATCGATACGTGAA
1 TGTATCGATACATGAA
855280 ACTGGCAGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (19 bp):
TGTATCGATACATGAACAA
Found at i:856894 original size:27 final size:27
Alignment explanation
Indices: 856864--856918 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
856854 CATAGGTTCC
856864 CTATTAACCTATGAGATGAAAATTAAG
1 CTATTAACCTATGAGATGAAAATTAAG
*
856891 CTATTAGCCTATGAGATGAAAATTAAG
1 CTATTAACCTATGAGATGAAAATTAAG
856918 C
1 C
856919 ACACACATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (27 bp):
CTATTAACCTATGAGATGAAAATTAAG
Found at i:867638 original size:14 final size:13
Alignment explanation
Indices: 867619--867649 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
867609 TTTTTCTCTC
867619 TTTTTTCTTGTTTT
1 TTTTTTCTT-TTTT
867633 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
867646 TTTT
1 TTTT
867650 CTTTTGGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.00, C:0.06, G:0.03, T:0.90
Consensus pattern (13 bp):
TTTTTTCTTTTTT
Found at i:867646 original size:11 final size:11
Alignment explanation
Indices: 867609--867654 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
867599 GATTTTCCTA
*
867609 TTTTTCTCTCTT
1 TTTTTTTCT-TT
* *
867621 TTTTCTTGTTT
1 TTTTTTTCTTT
867632 TTTTTTTCTTT
1 TTTTTTTCTTT
867643 TTTTTTTCTTT
1 TTTTTTTCTTT
867654 T
1 T
867655 GGAAGCTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 23 0.79
12 6 0.21
ACGTcount: A:0.00, C:0.13, G:0.02, T:0.85
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:870898 original size:20 final size:20
Alignment explanation
Indices: 870853--870904 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
870843 GTAGCCAAAC
**
870853 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
870873 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
870892 TTGTATCGATACA
1 TTGTATCGATACA
870905 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:873644 original size:21 final size:21
Alignment explanation
Indices: 873611--873655 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
873601 TTGCAAGTTG
*
873611 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
873633 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
873653 AAA
1 AAA
873656 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:875479 original size:15 final size:15
Alignment explanation
Indices: 875459--875489 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
875449 TAAAAATGTC
*
875459 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
875474 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
875489 C
1 C
875490 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:877238 original size:13 final size:13
Alignment explanation
Indices: 877220--877245 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
877210 ACATTTTTCC
877220 TTGTATCGATACA
1 TTGTATCGATACA
877233 TTGTATCGATACA
1 TTGTATCGATACA
877246 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:879817 original size:13 final size:13
Alignment explanation
Indices: 879799--879824 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
879789 ATAAGCAAGT
879799 ATGTATCGATACA
1 ATGTATCGATACA
879812 ATGTATCGATACA
1 ATGTATCGATACA
879825 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:886637 original size:13 final size:13
Alignment explanation
Indices: 886619--886656 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
886609 CATTTTTCTT
886619 TGTATCGATACAA
1 TGTATCGATACAA
*
886632 TGTATCGATACAC
1 TGTATCGATACAA
886645 TGTATCGATACA
1 TGTATCGATACA
886657 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:886811 original size:20 final size:20
Alignment explanation
Indices: 886768--886813 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
886758 AAATCTTTTG
886768 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
886789 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
886809 CAAAA
1 CAAAA
886814 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:889780 original size:20 final size:20
Alignment explanation
Indices: 889757--889829 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
889747 ACAATTCAAA
889757 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
889777 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
889798 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
889818 GTATCGATACAT
1 GTATCGATACAT
889830 AAAAAGGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:889800 original size:21 final size:21
Alignment explanation
Indices: 889774--889850 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
889764 TACATGTTGC
889774 AATGTATCGATACATGAAAAA
1 AATGTATCGATACATGAAAAA
****
889795 AATGTATCGATACATG-TTGC
1 AATGTATCGATACATGAAAAA
889815 AATGTATCGATACAT-AAAAA
1 AATGTATCGATACATGAAAAA
*
889835 GGATGTATCGATACAT
1 -AATGTATCGATACAT
889851 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:889808 original size:41 final size:41
Alignment explanation
Indices: 889757--889850 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
889747 ACAATTCAAA
889757 GTATCGATACATGTTGCAATGTATCGATACATGAAAAA-AAT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAGAAT
*
889798 GTATCGATACATGTTGCAATGTATCGATACATAAAAAGGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAGAAT
889839 GTATCGATACAT
1 GTATCGATACAT
889851 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 5 0.10
41 46 0.90
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAGAAT
Found at i:889907 original size:13 final size:13
Alignment explanation
Indices: 889889--889914 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
889879 TACAGCAAGT
889889 ATGTATCGATACA
1 ATGTATCGATACA
889902 ATGTATCGATACA
1 ATGTATCGATACA
889915 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:893996 original size:15 final size:15
Alignment explanation
Indices: 893976--894006 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
893966 TAAAAATGTC
*
893976 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
893991 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
894006 C
1 C
894007 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:896103 original size:13 final size:13
Alignment explanation
Indices: 896085--896123 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
896075 ACATTTTTCC
896085 TTGTATCGATACA
1 TTGTATCGATACA
896098 TTGTATCGATACA
1 TTGTATCGATACA
*
896111 CTGTATCGATACA
1 TTGTATCGATACA
896124 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:898018 original size:48 final size:48
Alignment explanation
Indices: 897964--898059 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
897954 GGGGAGATAA
897964 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
898012 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
898060 CGTAAAATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.38, C:0.08, G:0.29, T:0.25
Consensus pattern (48 bp):
AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
Found at i:898633 original size:20 final size:20
Alignment explanation
Indices: 898610--898682 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
898600 ACAATTCAAA
898610 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
898630 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
898651 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
898671 GTATCGATACAT
1 GTATCGATACAT
898683 AAAAAGGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:898653 original size:21 final size:21
Alignment explanation
Indices: 898627--898703 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
898617 TACATGTTGC
898627 AATGTATCGATACATGAAAAA
1 AATGTATCGATACATGAAAAA
****
898648 AATGTATCGATACATG-TTGC
1 AATGTATCGATACATGAAAAA
898668 AATGTATCGATACAT-AAAAA
1 AATGTATCGATACATGAAAAA
*
898688 GGATGTATCGATACAT
1 -AATGTATCGATACAT
898704 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:898661 original size:41 final size:41
Alignment explanation
Indices: 898610--898703 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
898600 ACAATTCAAA
898610 GTATCGATACATGTTGCAATGTATCGATACATGAAAAA-AAT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAGAAT
*
898651 GTATCGATACATGTTGCAATGTATCGATACATAAAAAGGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAGAAT
898692 GTATCGATACAT
1 GTATCGATACAT
898704 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 5 0.10
41 46 0.90
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAGAAT
Found at i:898760 original size:13 final size:13
Alignment explanation
Indices: 898742--898767 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
898732 TACAGCAAGT
898742 ATGTATCGATACA
1 ATGTATCGATACA
898755 ATGTATCGATACA
1 ATGTATCGATACA
898768 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:912960 original size:11 final size:11
Alignment explanation
Indices: 912931--912961 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
912921 TGGTATAAAT
*
912931 TTTGGAAAGGA
1 TTTGGAAGGGA
912942 TTTGGAAGGGA
1 TTTGGAAGGGA
912953 TTTGGAAGG
1 TTTGGAAGG
912962 TATGATCAGT
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:0.29, C:0.00, G:0.42, T:0.29
Consensus pattern (11 bp):
TTTGGAAGGGA
Found at i:913129 original size:43 final size:43
Alignment explanation
Indices: 913068--913769 Score: 301
Period size: 43 Copynumber: 14.9 Consensus size: 43
913058 GTGAAGGTGT
* *
913068 CAATGTGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGC
* * *
913111 CAATGTGCTAATTCAAGGCCAGCAACATTGGACTTTATGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGAC--T-T-A--AAGATGC
* * *
913160 CAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAAAGGTGGTAAAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT--AAA----G---A--TGC
* * * * *
913214 CAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGC
* * *
913257 TAATGTGCTGATTCAAGGTCAGCGACATTAGACTTAAAGATGACAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AA-A-G----A--TGC
* * * * * *
913309 CAATATGCTGATTCAAAGCCAGCAATATTGGACTCAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGC
* * *
913352 CAATGTGCTGATTCAAGACCAGCAACATTGGACTTAAGAGGTGGTAAAAGTGT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA-A----G----A-TGC
* * * * *
913405 CAATATGCTGATTCAAGGCTAACGATATTGGACTTAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGC
* * *
913448 CAATGTGCTGATTCAAGGCTAACGACATT-GACTTAAAAATGACAAAGACGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGAC-T-----T---AAAGATGC
* * * ** * * *
913499 CAATATGTTGATTCAAGGCTAGTAATATTAGACTTAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGC
* *
913542 CAATGTGCTGATTCAAGGCCAGCAACATTGGAATTAAGAGGTGGTAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA-A----G---A--TGC
* * *
913595 CAATATGCTGATTCAAGGCCAGCGATATTGGATTTAAATG-TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAA-GATGC
* * * * *
913638 TAATGTGCTGATTTAAGTCTAGCGACATTGAACTTAAAGATGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AA-A-G----A--TGC
* * *
913690 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGC
* *
913733 CAATGTGCTGATTCAAGGCTAGCAACATTGGACTTAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAA
913770 GAAAGAAAAA
Statistics
Matches: 504, Mismatches: 91, Indels: 128
0.70 0.13 0.18
Matches are distributed among these distances:
42 3 0.01
43 230 0.46
44 6 0.01
45 7 0.01
46 4 0.01
47 3 0.01
48 5 0.01
49 41 0.08
50 2 0.00
51 34 0.07
52 68 0.13
53 69 0.14
54 32 0.06
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.26
Consensus pattern (43 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGC
Found at i:913243 original size:146 final size:147
Alignment explanation
Indices: 913061--913342 Score: 395
Period size: 146 Copynumber: 1.9 Consensus size: 147
913051 CTTAAAGGTG
*
913061 AAGGTGTCAATGTGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGCCAATGTGCTAATTCA
1 AAGGTGTCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGCCAATGTGCTAATTCA
* * * * *
913126 AGGCCAGCAACATTGGACTTTATGATG-AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTA
66 AGGCCAGCAACATTAGACTTAAAGATGAAAGGTGCCAATATGCTGATTCAAAGCCAGCAACATTA
913190 GACTTAAAAAGGTGGTA
131 GACTTAAAAAGGTGGTA
* * * ** *
913207 AAGGTGTCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGTTAATGTGCTGATTCA
1 AAGGTGTCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGCCAATGTGCTAATTCA
* * *
913272 AGGTCAGCGACATTAGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAAGCCAGCAATAT
66 AGGCCAGCAACATTAGACTTAAAGATG--AAAGGTGCCAATATGCTGATTCAAAGCCAGCAACAT
*
913337 TGGACT
129 TAGACT
913343 CAAAGGTGCC
Statistics
Matches: 117, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
146 80 0.68
149 37 0.32
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.26
Consensus pattern (147 bp):
AAGGTGTCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGCCAATGTGCTAATTCA
AGGCCAGCAACATTAGACTTAAAGATGAAAGGTGCCAATATGCTGATTCAAAGCCAGCAACATTA
GACTTAAAAAGGTGGTA
Found at i:913348 original size:95 final size:95
Alignment explanation
Indices: 913102--913823 Score: 800
Period size: 95 Copynumber: 7.5 Consensus size: 95
913092 ATATTGGACT
* * * * *
913102 TAAAGATGCCAATGTGCTAATTCAAGGCCAGCAACATTGGACTTTATGATGAAGGTGCCAATGTG
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC--T-T-A--AAGGTGCCAATGTG
* * *
913167 CTGATTCAAGGCCAGCAACATTAGACTTAAAAAGGTGG
60 CTGATTCAAGGCCAGCAACATTGGACTT--AAAGATGA
* * **
913205 TAAAGGTGTCAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAGGTGTTAATGTGCTGATT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATT
* * *
913270 CAAGGTCAGCGACATTAGACTTAAAGATGA
66 CAAGGCCAGCAACATTGGACTTAAAGATGA
* * * *
913300 CAAAGGTGCCAATATGCTGATTCAAAGCCAGCAATATTGGACTCAAAGGTGCCAATGTGCTGATT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATT
* * *
913365 CAAGACCAGCAACATTGGACTTAAGAGGTGG
66 CAAGGCCAGCAACATTGGACTTAA-AGATGA
* * * *
913396 TAAAAGTGTCAATATGCTGATTCAAGGCTAACGATATTGGACTTAAAGGTGCCAATGTGCTGATT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATT
* * * *
913461 CAAGGCTAACGACATT-GACTTAAAAATGA
66 CAAGGCCAGCAACATTGGACTTAAAGATGA
* ** * * ** *
913490 CAAAGACGCCAATATGTTGATTCAAGGCTAGTAATATTAGACTTAAAGGTGCCAATGTGCTGATT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATT
* * *
913555 CAAGGCCAGCAACATTGGAATTAAGAGGTGG
66 CAAGGCCAGCAACATTGGACTTAA-AGATGA
* * *
913586 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGATTTAAATGTGCTAATGTGCTGATT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATT
* * * * *
913651 TAAGTCTAGCGACATTGAACTTAAAGATGA
66 CAAGGCCAGCAACATTGGACTTAAAGATGA
913681 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATT
* *
913746 CAAGGCTAGCAACATTGGACTT-AAGAAAGA
66 CAAGGCCAGCAACATTGGACTTAAAG-ATGA
* * * * ** * *
913776 AAAAGATGCCAATGTGCTGATTTAAGGCCAATGACATTGGGCTTAAAG
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
913824 ATGAGAAAAA
Statistics
Matches: 521, Mismatches: 94, Indels: 16
0.83 0.15 0.03
Matches are distributed among these distances:
94 74 0.14
95 223 0.43
96 148 0.28
97 38 0.07
99 1 0.00
100 1 0.00
101 1 0.00
103 35 0.07
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (95 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATT
CAAGGCCAGCAACATTGGACTTAAAGATGA
Found at i:913433 original size:191 final size:191
Alignment explanation
Indices: 913103--913771 Score: 966
Period size: 191 Copynumber: 3.5 Consensus size: 191
913093 TATTGGACTT
* * * *
913103 AAAGATGCCAATGTGCTAATTCAAGGCCAGCAACATTGGACTTTATGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGAC--T-T-A--AAGGTGCCAATGTGC
* *
913168 TGATTCAAGGCCAGCAACATTAGACTTAAAAAGGTGGTAAAGGTGTCAATATGCTGATTCAAGGC
60 TGATTCAAGGCCAGCAACATTGGACTT-AAGAGGTGGTAAAGGTGTCAATATGCTGATTCAAGGC
*
913233 TAGCGATATTGGACTTAAAGGTGTTAATGTGCTGATTCAAGGTC-AGCGACATTAGACTTAAAGA
124 TAGCGATATTGGACTTAAAGGTGCTAATGTGCTGATTCAAGGTCTAGCGACATT-GACTTAAAGA
913297 TGAC
188 TGAC
* *
913301 AAAGGTGCCAATATGCTGATTCAAAGCCAGCAATATTGGACTCAAAGGTGCCAATGTGCTGATTC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGCCAATGTGCTGATTC
* * *
913366 AAGACCAGCAACATTGGACTTAAGAGGTGGTAAAAGTGTCAATATGCTGATTCAAGGCTAACGAT
66 AAGGCCAGCAACATTGGACTTAAGAGGTGGTAAAGGTGTCAATATGCTGATTCAAGGCTAGCGAT
* * *
913431 ATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGG-CTAACGACATTGACTTAAAAATGAC
131 ATTGGACTTAAAGGTGCTAATGTGCTGATTCAAGGTCTAGCGACATTGACTTAAAGATGAC
** * * * *
913491 AAAGACGCCAATATGTTGATTCAAGGCTAGTAATATTAGACTTAAAGGTGCCAATGTGCTGATTC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGCCAATGTGCTGATTC
* * *
913556 AAGGCCAGCAACATTGGAATTAAGAGGTGGTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
66 AAGGCCAGCAACATTGGACTTAAGAGGTGGTAAAGGTGTCAATATGCTGATTCAAGGCTAGCGAT
* * * *
913621 ATTGGATTTAAATGTGCTAATGTGCTGATTTAA-GTCTAGCGACATTGAACTTAAAGATGAT
131 ATTGGACTTAAAGGTGCTAATGTGCTGATTCAAGGTCTAGCGACATTG-ACTTAAAGATGAC
*
913682 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGCCAATGTGCTGATTC
*
913747 AAGGCTAGCAACATTGGACTTAAGA
66 AAGGCCAGCAACATTGGACTTAAGA
913772 AAGAAAAAGA
Statistics
Matches: 423, Mismatches: 45, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
189 1 0.00
190 170 0.40
191 174 0.41
192 40 0.09
194 1 0.00
196 1 0.00
198 36 0.09
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (191 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGCCAATGTGCTGATTC
AAGGCCAGCAACATTGGACTTAAGAGGTGGTAAAGGTGTCAATATGCTGATTCAAGGCTAGCGAT
ATTGGACTTAAAGGTGCTAATGTGCTGATTCAAGGTCTAGCGACATTGACTTAAAGATGAC
Found at i:913725 original size:52 final size:52
Alignment explanation
Indices: 913629--914086 Score: 216
Period size: 52 Copynumber: 8.9 Consensus size: 52
913619 ATATTGGATT
* * * * * *
913629 TAAATGTGCTAATGTGCTGATTTAAGTCTAGCGACATTGAACTTAAAGATGA
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA
* *
913681 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-------T--
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA
* * *
913724 TAAAGGTGCCAATGTGCTGATTCAAGGCTAGCAACATTGGACTT-AAGAAAGA
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG-ATGA
* * * ** *
913776 AAAAGATGCCAATGTGCTGATTTAAGGCCAATGACATTGGGCTTAAAGATGAGAAAAATGA
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT--A-A--AG----ATGA
* * * * * *
913837 TAAAGGTTCTAATATGCTGATTCAGGGCCAGTGATATTAGG-CTTAAAGATGCA
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATG-A
** ** * * * * *
913890 -AAAAATGTTAATGTGCTGATTCACGGCTAGCAACATTAGA-TTGGAAGATGA
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGA
* * * ** * * *
913941 -GAAGAATGCCAATGTGCTGATACAAGGCCAATGGCATTGCG-CTT-AGGAATGT
1 TAAAG-GTGCCAATGTGCTGATTCAAGGCCAGCGACATTG-GACTTAAAG-ATGA
* * * *
913993 TAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATG-
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA
* * *
914044 --AAGGTGCCAATGTGCTAATTCAAGGCCAACGACATTAGACTTA
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA
914087 GAAGGAGATA
Statistics
Matches: 304, Mismatches: 73, Indels: 61
0.69 0.17 0.14
Matches are distributed among these distances:
43 38 0.12
45 1 0.00
49 36 0.12
51 9 0.03
52 166 0.55
53 9 0.03
56 3 0.01
58 3 0.01
59 1 0.00
61 36 0.12
62 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (52 bp):
TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA
Found at i:913788 original size:190 final size:191
Alignment explanation
Indices: 913103--913823 Score: 885
Period size: 190 Copynumber: 3.7 Consensus size: 191
913093 TATTGGACTT
* * *
913103 AAAGATGCCAATGTGCTAATTCAAGGCCAGCAACATTGGACTTTATGATGAAGGTGCCAATGTGC
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGAC--T-T-A--AAGGTGCCAATGTGC
* * ** * *
913168 TGATTCAAGGCCAGCAACATTAGACTTAAAAAGGTGGTAAAGGTGTCAATATGCTGATTCAAGGC
60 TGATTCAAGGCCAGCAACATTGGACTT-AAGAGAAGGAAAAGGTGCCAATATGCTGATTCAAGGC
* *
913233 TAGCGATATTGGACTTAAAGGTGTTAATGTGCTGATTCAAGGTC-AGCGACATT-AGACTTAAAG
124 CAGCGATATTGGACTTAAAGGTGCTAATGTGCTGATTCAA-GTCTAGCGACATTGA-ACTTAAAG
913296 ATGAC
187 ATGAC
* * *
913301 AAAGGTGCCAATATGCTGATTCAAAGCCAGCAATATTGGACTCAAAGGTGCCAATGTGCTGATTC
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGCCAATGTGCTGATTC
* ** * * *
913366 AAGACCAGCAACATTGGACTTAAGAGGTGGTAAAA-GTGTCAATATGCTGATTCAAGGCTAACGA
66 AAGGCCAGCAACATTGGACTTAAGAGAAGG-AAAAGGTGCCAATATGCTGATTCAAGGCCAGCGA
* * * *
913430 TATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCTAACGACATTG-ACTTAAAAATGAC
130 TATTGGACTTAAAGGTGCTAATGTGCTGATTCAAGTCTAGCGACATTGAACTTAAAGATGAC
* * * * *
913491 AAAGACGCCAATATGTTGATTCAAGGCTAGTAATATTAGACTTAAAGGTGCCAATGTGCTGATTC
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGCCAATGTGCTGATTC
* ** *
913556 AAGGCCAGCAACATTGGAATTAAGAGGTGGTAAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
66 AAGGCCAGCAACATTGGACTTAAGAGAAGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
* * * *
913621 ATTGGATTTAAATGTGCTAATGTGCTGATTTAAGTCTAGCGACATTGAACTTAAAGATGAT
131 ATTGGACTTAAAGGTGCTAATGTGCTGATTCAAGTCTAGCGACATTGAACTTAAAGATGAC
* *
913682 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTC
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGCCAATGTGCTGATTC
* * * * * ** *
913747 AAGGCTAGCAACATTGGACTTAAGA-AAGAAAAAGATGCCAATGTGCTGATTTAAGGCCAATGAC
66 AAGGCCAGCAACATTGGACTTAAGAGAAGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
*
913811 ATTGGGCTTAAAG
131 ATTGGACTTAAAG
913824 ATGAGAAAAA
Statistics
Matches: 458, Mismatches: 60, Indels: 18
0.85 0.11 0.03
Matches are distributed among these distances:
189 3 0.01
190 206 0.45
191 168 0.37
192 43 0.09
194 1 0.00
196 1 0.00
198 36 0.08
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (191 bp):
AAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGGTGCCAATGTGCTGATTC
AAGGCCAGCAACATTGGACTTAAGAGAAGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
ATTGGACTTAAAGGTGCTAATGTGCTGATTCAAGTCTAGCGACATTGAACTTAAAGATGAC
Found at i:917830 original size:13 final size:13
Alignment explanation
Indices: 917812--917836 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
917802 TTCAACAATT
917812 TGTATCGATACAA
1 TGTATCGATACAA
917825 TGTATCGATACA
1 TGTATCGATACA
917837 TAAGTGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:922279 original size:72 final size:72
Alignment explanation
Indices: 922162--922338 Score: 309
Period size: 72 Copynumber: 2.5 Consensus size: 72
922152 TCCCGTAGCT
*
922162 ATGTATCGATACAATTCATAATGTATCTATACATGCATTTGAAATTATAGCCGTTTACAGCCATT
1 ATGTATCGATACAATTCATAATGTATCGATACATGCATTTGAAATTATAGCCGTTTACAGCCATT
922227 TGAAGCA
66 TGAAGCA
* *
922234 ATGTATCGATACAATTCATAATGTATCGATACATGCATTTGAAATTATAGCCGTTTATAGCCGTT
1 ATGTATCGATACAATTCATAATGTATCGATACATGCATTTGAAATTATAGCCGTTTACAGCCATT
922299 TGAAGCA
66 TGAAGCA
* *
922306 ATGTATCGATAAAATTCATCATGTATCGATACA
1 ATGTATCGATACAATTCATAATGTATCGATACA
922339 ATGTGTCATG
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 100 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (72 bp):
ATGTATCGATACAATTCATAATGTATCGATACATGCATTTGAAATTATAGCCGTTTACAGCCATT
TGAAGCA
Found at i:922357 original size:20 final size:20
Alignment explanation
Indices: 922306--922359 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
922296 GTTTGAAGCA
*
922306 ATGTATCGATAAAATTCATC
1 ATGTATCGATACAATTCATC
*
922326 ATGTATCGATACAATGT-GTC
1 ATGTATCGATACAAT-TCATC
922346 ATGTATCGATACAA
1 ATGTATCGATACAA
922360 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATTCATC
Found at i:922432 original size:19 final size:20
Alignment explanation
Indices: 922388--922440 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
922378 CTGCCAGTTT
* *
922388 CATGTATCGATACAATTATC
1 CATGTATCGATACAATGATA
922408 CATGTATCGATACAATGA-A
1 CATGTATCGATACAATGATA
922427 CATGTATCGATACA
1 CATGTATCGATACA
922441 TTGTATCGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATGATA
Found at i:922447 original size:13 final size:13
Alignment explanation
Indices: 922429--922453 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
922419 ACAATGAACA
922429 TGTATCGATACAT
1 TGTATCGATACAT
922442 TGTATCGATACA
1 TGTATCGATACA
922454 AAGCATAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:922472 original size:33 final size:32
Alignment explanation
Indices: 922410--922474 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
922400 CAATTATCCA
*
922410 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
*
922442 TGTATCGATACAAAGCATA-ATGTATTGATACAT
1 TGTATCGATACAAAG-A-ACATGTATCGATACAT
922475 CTAGGTGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.48
33 14 0.48
34 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAT
Found at i:923986 original size:22 final size:21
Alignment explanation
Indices: 923951--924000 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
923941 TTTGTTGATG
*
923951 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
923971 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
923992 AATTTGAAG
1 ATTTTGAAG
924001 AAGATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:923997 original size:21 final size:22
Alignment explanation
Indices: 923958--924000 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
923948 ATGATTTTGA
* *
923958 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
923980 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
924001 AAGATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:927263 original size:13 final size:13
Alignment explanation
Indices: 927245--927274 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
927235 ACAATTCATT
927245 ATGTATCGATACA
1 ATGTATCGATACA
*
927258 ATGTATCGATATA
1 ATGTATCGATACA
927271 ATGT
1 ATGT
927275 GCCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:927345 original size:20 final size:19
Alignment explanation
Indices: 927320--927376 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
927310 CTGCCAGTTT
927320 CATGTATCGATACAATTGTC
1 CATGTATCGATAC-ATTGTC
* **
927340 CATGTATCAATACGA-TGAG
1 CATGTATCGATAC-ATTGTC
927359 CATGTATCGATACATTGT
1 CATGTATCGATACATTGT
927377 ATCGATACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 1 0.03
19 16 0.53
20 13 0.43
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
CATGTATCGATACATTGTC
Found at i:927379 original size:13 final size:13
Alignment explanation
Indices: 927361--927385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
927351 ACGATGAGCA
927361 TGTATCGATACAT
1 TGTATCGATACAT
927374 TGTATCGATACA
1 TGTATCGATACA
927386 AAGCATAATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:929600 original size:11 final size:11
Alignment explanation
Indices: 929557--929620 Score: 55
Period size: 11 Copynumber: 6.2 Consensus size: 11
929547 CAATTATAAA
929557 TATAATTGTAT
1 TATAATTGTAT
* *
929568 TACAAGT-TA-
1 TATAATTGTAT
* *
929577 TATATTTGCAT
1 TATAATTGTAT
929588 TATAATTGTAT
1 TATAATTGTAT
*
929599 TATAA-T-TAA
1 TATAATTGTAT
929608 TATAATTGTAT
1 TATAATTGTAT
929619 TA
1 TA
929621 CAATCGTCTA
Statistics
Matches: 39, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
9 11 0.28
10 5 0.13
11 23 0.59
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (11 bp):
TATAATTGTAT
Found at i:929611 original size:31 final size:31
Alignment explanation
Indices: 929557--929620 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
929547 CAATTATAAA
*
929557 TATAATTGTATTACAAGTTATATATTTGCAT
1 TATAATTGTATTACAAGTTATATAATTGCAT
* *
929588 TATAATTGTATTATAA-TTAATATAATTGTAT
1 TATAATTGTATTACAAGTT-ATATAATTGCAT
929619 TA
1 TA
929621 CAATCGTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 27 0.93
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (31 bp):
TATAATTGTATTACAAGTTATATAATTGCAT
Found at i:930165 original size:30 final size:30
Alignment explanation
Indices: 930131--930191 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
930121 CTTATAAAAT
*
930131 TATTATTATCATTAAAATTTT-CATAGCAAA
1 TATTATTAGCA-TAAAATTTTCCATAGCAAA
*
930161 TATTATTAGCATAGAATTTTCCATAGCAAA
1 TATTATTAGCATAAAATTTTCCATAGCAAA
930191 T
1 T
930192 TTGCTATGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (30 bp):
TATTATTAGCATAAAATTTTCCATAGCAAA
Found at i:930226 original size:32 final size:32
Alignment explanation
Indices: 930190--930270 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
930180 TCCATAGCAA
*
930190 ATTTGCTATGGAAAATTCCATTACTAATAATT
1 ATTTGCTATGGAAAATTCCATTACGAATAATT
* ** * * *
930222 ATTTGATATAAAAAATTTCATTGCGAGTAATT
1 ATTTGCTATGGAAAATTCCATTACGAATAATT
*
930254 ATATGCTATGGAAAATT
1 ATTTGCTATGGAAAATT
930271 TCGTCGCTAA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (32 bp):
ATTTGCTATGGAAAATTCCATTACGAATAATT
Found at i:932284 original size:79 final size:79
Alignment explanation
Indices: 932148--932352 Score: 270
Period size: 79 Copynumber: 2.6 Consensus size: 79
932138 GTTCTAATCA
* * * *
932148 GGGTTGGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCCCGATTGTGGAAAATCAATGCTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGGAAAATCAAT-ATT
*
932213 T-AGAAATAAGGCCG
65 TCAGAAATAAAGCCG
* *
932227 GGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGGAGTATCTCCAATTGT-GAGAAATCAATATT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGGA-AAATCAATATT
932291 TCAGAAATAAAGCCG
65 TCAGAAATAAAGCCG
* * * **
932306 GGGTTGGGGTATCTCCTTGGGAATAACGGGGTTGGAGTATCCCCAAT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAAT
932353 GAAATAACGG
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
78 5 0.05
79 105 0.95
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGGAAAATCAATATTT
CAGAAATAAAGCCG
Found at i:932359 original size:107 final size:108
Alignment explanation
Indices: 932225--932457 Score: 317
Period size: 109 Copynumber: 2.2 Consensus size: 108
932215 GAAATAAGGC
* * *
932225 CGGGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGGAGTATCTCCAATTGTG-AGAAATCAATA
1 CGGGGTTGGAGTATCCCCACGAAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAAATCAATA
* * * **
932289 TTTCAGAAATAAAGCCGGGGTTGGGGTATCTCCTTGGGAATAA
66 TTTCAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAA
* *
932332 CGGGGTTGGAGTATCCCCAATG-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAAATCAA
1 CGGGGTTGGAGTATCCCC-ACGAAAATAACGGGGTTGGAGTATCCCCAATTGTG-AAAAAATCAA
* * *
932396 TATTTTAGATATAAAGCTGGGGTTGGAGTATCCCCTCGAAAATAA
64 TATTTCAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAA
932441 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
932458 TATTTAAGAA
Statistics
Matches: 110, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
107 47 0.43
108 1 0.01
109 62 0.56
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (108 bp):
CGGGGTTGGAGTATCCCCACGAAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAAATCAATA
TTTCAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAA
Found at i:934842 original size:20 final size:20
Alignment explanation
Indices: 934817--934895 Score: 104
Period size: 20 Copynumber: 3.8 Consensus size: 20
934807 GTAAACCCAG
934817 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
*
934837 AATGTATTGATACAATGAAC
1 AATGTATCGATACAATGAAC
934857 AATGTATGTATCGATACAATGAAC
1 -A---ATGTATCGATACAATGAAC
*
934881 AATGTATCGACACAA
1 AATGTATCGATACAA
934896 ATTGTGAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
20 32 0.62
21 1 0.02
23 1 0.02
24 18 0.35
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Done.