Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 35 of 425
Found at i:9009813 original size:71 final size:71
Alignment explanation
Indices: 9009733--9009883 Score: 257
Period size: 71 Copynumber: 2.1 Consensus size: 71
9009723 TTAAAAAAAC
* *
9009733 TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAACCAATTTTAAAATTTAAATATATTTAAT
1 TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAAACAATTTTAAAATTTAAATATATTCAAT
9009798 ATATTT
66 ATATTT
* *
9009804 TTAAAAAATTAAATATATTAAAAATTGTTAAGTATAAACAATTTTAAAATTTTAATATATTCAAT
1 TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAAACAATTTTAAAATTTAAATATATTCAAT
9009869 ATATTT
66 ATATTT
*
9009875 TTTAAAAAT
1 TTAAAAAAT
9009884 ATATTTTAAA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 75 1.00
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.43
Consensus pattern (71 bp):
TTAAAAAATTAAATATATTAAAAAATGTTAAGTATAAACAATTTTAAAATTTAAATATATTCAAT
ATATTT
Found at i:9009964 original size:8 final size:8
Alignment explanation
Indices: 9009941--9010000 Score: 66
Period size: 8 Copynumber: 7.0 Consensus size: 8
9009931 GAAACAATAT
*
9009941 TTTTAATA
1 TTTTAAAA
9009949 TATTTAAAA
1 T-TTTAAAA
9009958 TTTTAAAAAA
1 TTTT--AAAA
9009968 TTTTAAAA
1 TTTTAAAA
9009976 TTTTAAAA
1 TTTTAAAA
9009984 TTTTAAATA
1 TTTTAAA-A
*
9009993 TGTTAAAA
1 TTTTAAAA
9010001 GAAAATGTTG
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
8 24 0.52
9 14 0.30
10 8 0.17
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (8 bp):
TTTTAAAA
Found at i:9010111 original size:77 final size:79
Alignment explanation
Indices: 9009969--9010114 Score: 199
Period size: 77 Copynumber: 1.9 Consensus size: 79
9009959 TTTAAAAAAT
* * * * **
9009969 TTTAAAATTTTAAAATTTTAAATATGTTAAAAGAAAATGTTGAGTATAACCAATTTTAATTTTTT
1 TTTAAAATATTAAAATTTTAAACATATTAAAAGAAAATGTTAAGTATAACCAATTTTAAAATTTT
9010034 AATAATTGAATATA
66 AATAATTGAATATA
*
9010048 TTTAAATATATTAAAATTTTGAACATATT-AAA-AAAAT-TTAAGTATAACCAATTTTAAAATTT
1 TTTAAA-ATATTAAAATTTTAAACATATTAAAAGAAAATGTTAAGTATAACCAATTTTAAAATTT
9010110 TAATA
65 TAATA
9010115 TATTTTTTAA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
77 27 0.46
78 5 0.08
79 9 0.15
80 18 0.31
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.43
Consensus pattern (79 bp):
TTTAAAATATTAAAATTTTAAACATATTAAAAGAAAATGTTAAGTATAACCAATTTTAAAATTTT
AATAATTGAATATA
Found at i:9012417 original size:30 final size:30
Alignment explanation
Indices: 9012314--9012417 Score: 138
Period size: 30 Copynumber: 3.5 Consensus size: 30
9012304 GCCGCAGAGC
* *
9012314 AGTTCATATCACTCGGACATTA-GCAGTTCA
1 AGTTCATATCACCCGGACA-TAGGCGGTTCA
* * *
9012344 AGTTCATATCACCTGGACATGGGCGGTTCG
1 AGTTCATATCACCCGGACATAGGCGGTTCA
9012374 AGTTCATATCACCCGGACATAGGCGGTTCA
1 AGTTCATATCACCCGGACATAGGCGGTTCA
*
9012404 AGTTCATTTCACCC
1 AGTTCATATCACCC
9012418 ACAGCAACCA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 1 0.02
30 63 0.98
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (30 bp):
AGTTCATATCACCCGGACATAGGCGGTTCA
Found at i:9013148 original size:37 final size:37
Alignment explanation
Indices: 9013098--9013170 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
9013088 TCGAGTGTGT
*
9013098 ACACATCGTCAATATATTATTCGACATTCAAACTGTA
1 ACACATCATCAATATATTATTCGACATTCAAACTGTA
9013135 ACACATCATCAATATATTATTCGACATTCAAACTGT
1 ACACATCATCAATATATTATTCGACATTCAAACTGT
9013171 GGGTAGCACA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (37 bp):
ACACATCATCAATATATTATTCGACATTCAAACTGTA
Found at i:9015782 original size:21 final size:21
Alignment explanation
Indices: 9015761--9015802 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9015751 CTCCACCAAA
*
9015761 TAAAATATTAATTTTTAAAAAT
1 TAAAAT-TTAATTTTAAAAAAT
*
9015783 TTAAATTTAATTTTAAAAAA
1 TAAAATTTAATTTTAAAAAA
9015803 CGTTTGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAAATTTAATTTTAAAAAAT
Found at i:9015822 original size:33 final size:32
Alignment explanation
Indices: 9015783--9015864 Score: 137
Period size: 32 Copynumber: 2.6 Consensus size: 32
9015773 TTTTAAAAAT
* * *
9015783 TTAAATTTAATTTTAAAAAACGTTTGGATATC
1 TTAAAATTAATTTTAAAAAAAGTTTGAATATC
9015815 TTAAAATTAATTTTAAAAAAAGTTTGAATATC
1 TTAAAATTAATTTTAAAAAAAGTTTGAATATC
9015847 TTAAAATTAATTTTAAAA
1 TTAAAATTAATTTTAAAA
9015865 TTAATAATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.43
Consensus pattern (32 bp):
TTAAAATTAATTTTAAAAAAAGTTTGAATATC
Found at i:9015910 original size:29 final size:29
Alignment explanation
Indices: 9015841--9015931 Score: 91
Period size: 29 Copynumber: 3.1 Consensus size: 29
9015831 AAAAAGTTTG
*
9015841 AATATCTTAAAATTA-ATTTTAAAA-TTAAT
1 AATAT-TTAAAATTATA-TTTAAAATTTAAA
9015870 AAT-TTATAAAAATTATATTTAAAATTTAAA
1 AATATT-T-AAAATTATATTTAAAATTTAAA
9015900 AATATTTAAAA-TATATTTAAAATATTATAA
1 AATATTTAAAATTATATTTAAAAT-TTA-AA
9015930 AA
1 AA
9015932 CAAATAATAA
Statistics
Matches: 54, Mismatches: 1, Indels: 13
0.79 0.01 0.19
Matches are distributed among these distances:
27 1 0.02
28 14 0.26
29 24 0.44
30 13 0.24
31 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (29 bp):
AATATTTAAAATTATATTTAAAATTTAAA
Found at i:9015912 original size:9 final size:9
Alignment explanation
Indices: 9015884--9015931 Score: 53
Period size: 10 Copynumber: 5.1 Consensus size: 9
9015874 TATAAAAATT
9015884 ATATTTAAA
1 ATATTTAAA
*
9015893 AT-TTAAAA
1 ATATTTAAA
9015901 ATATTTAAAA
1 ATATTT-AAA
9015911 TATATTTAAA
1 -ATATTTAAA
9015921 ATATTATAAA
1 ATATT-TAAA
9015931 A
1 A
9015932 CAAATAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
8 7 0.21
9 9 0.27
10 11 0.33
11 6 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATATTTAAA
Found at i:9015917 original size:11 final size:11
Alignment explanation
Indices: 9015893--9015924 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
9015883 TATATTTAAA
9015893 ATTTAAAA-AT
1 ATTTAAAATAT
9015903 ATTTAAAATAT
1 ATTTAAAATAT
9015914 ATTTAAAATAT
1 ATTTAAAATAT
9015925 TATAAAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTTAAAATAT
Found at i:9016038 original size:17 final size:17
Alignment explanation
Indices: 9016016--9016053 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
9016006 ATTATGAAAC
9016016 AAATTAAAAAATATTTA
1 AAATTAAAAAATATTTA
9016033 AAATTAAAAAATATTTA
1 AAATTAAAAAATATTTA
9016050 AAAT
1 AAAT
9016054 ATTATGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATTAAAAAATATTTA
Found at i:9016262 original size:35 final size:35
Alignment explanation
Indices: 9016199--9016282 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 35
9016189 AATTAATAAT
*
9016199 AAATAAAATAAATAAGAATAAAGACAAAACTTAAAA
1 AAATAAAA-AAAAAAGAATAAAGACAAAACTTAAAA
* *
9016235 AAAGTAAAAAAAAAAGAAT-AGGACAAAAGTTAAAA
1 AAA-TAAAAAAAAAAGAATAAAGACAAAACTTAAAA
*
9016270 AAACAAAAAAAAA
1 AAATAAAAAAAAA
9016283 CAAAAGAAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
34 9 0.21
35 17 0.40
36 12 0.28
37 5 0.12
ACGTcount: A:0.75, C:0.05, G:0.08, T:0.12
Consensus pattern (35 bp):
AAATAAAAAAAAAAGAATAAAGACAAAACTTAAAA
Found at i:9026389 original size:749 final size:748
Alignment explanation
Indices: 9024916--9026586 Score: 2530
Period size: 749 Copynumber: 2.2 Consensus size: 748
9024906 AAAGGTGGCT
* *
9024916 TTCTTACTCCATAGCATGTAGTATTCGATTGTTACAAAAGTTAGTTTATTCTCAACTTCCATTAA
1 TTCTT-CTCCATAGCATGAAGT-TTCGATTGTTACAAAAATTAGTTTATTCTCAACTTCCATTAA
* * * *
9024981 TAACATTTTATATTTAGATGCATTTCTTATTTAACTAGTTCATAACTACAAGTTAATGGAAAATG
64 TAACATTTTATATTTAGATGCATTTCTCATTTAATTAGTTCATAACTACAAGTTAGT-GAAAATC
* * *
9025046 CCGATTATTTTTATGCAAAAATTAAAATTTGAACTTTCAAT-CGTTAGTGATCTCAAATTGTACA
128 CCGATTAATTTTATGCAAAAATTGAAATTTGAACTTTCAATACATTAGTGATCTCAAATTGTACA
9025110 ATCCTTCATTGTCAGGCAAGATAAGAATACAAAGGTTTTGGCAGCCAACAACTCCAATAGAACAA
193 ATCCTTCATTGTCAGGCAAGATAAGAATACAAAGGTTTTGGCAGCCAACAACTCCAATAGAACAA
* * *
9025175 GATACACTTTTAAGCCTTGACTTTCTAGCAACAAATACTAAGATATGCATACTAACATATGTTTT
258 GATACACTTTTAAGCCTTAACTTCCTAGCAACAAATACTAAGATATGCATACTAACACATGTTTT
* *
9025240 ACTATATTGAAAAAAAATAATATGTATTTATAACAATCACTTTAGTCCTTAGAATGTTAACGTAA
323 ACTATATTGAAAAAAAATAATATGTATTTATAACAATCACTTCAATCCTTAGAATGTTAACGTAA
* *
9025305 GTATATGAATATTTTTTCTATTGCCATACAAAACAACTTCATTCAAGTTGACTTGAAAATGTTTA
388 GTATATGAATATTTTTTCTATTGCCATACAAAACAACTTCATTCAAGTTGACTTG-AAACGCTTA
* *
9025370 TTAAAAACATTGTACAAATAAATTTTGAGTCGAAAGTTCACTTGAAAATTTAGAGCCAAATTTAT
452 TTAAAAACATTGTACAAACAAATTTTGAGTCGAAAGTTCACTTGAAAATTTAGAACCAAATTTAT
*** *
9025435 TGATAACTTTGAAAAGAAGGTTACAATCTATACAAATTTCTTAAATACAAAGAAAAATATTCTTT
517 TGATAACTTTGAAAAGAAAACTACAATATATACAAATTTCTTAAATACAAAGAAAAATATTCTTT
* * * *
9025500 GATTCTTCTCTCCGATTTAACTTTTATCCAATGGTCGTTTGACTTGATCTTAGACTAGTGCGGAG
582 GATTCTTCTCTCCGATTTAACTTTTATCCAAAGGTCATTTGACTAGATCTTAGACGAGTGCGGAG
* * *
9025565 TGCTTCAAGTGTCATGTTTACTTGCTTTTGAAACAGGTTTAAACCTCCTGTCTTCATTTGAAATA
647 TGCTTCAAGTGTCATGTTGACTTGCTTTTGAAACAGGTTTAAACCTCCTGTCTTCAGTTGAAACA
* *
9025630 GATTGAAAGGCAGTTTTCT-TCAGAAAAGACTCTTGGG
712 GATCGAAAGGCAGCTTTCTCT-AGAAAAGACTCTTGGG
*
9025667 TTCTTCTCCATAGCATGAAGTTCTCGATTGTTACAAAAAATT-GTTCATTCTCAACTTCCATTAA
1 TTCTTCTCCATAGCATGAAGTT-TCGATTGTTAC-AAAAATTAGTTTATTCTCAACTTCCATTAA
* *
9025731 TAACATTTT-TATTTAGATGCATTTCTCATTTAATTAGCTCATAACTACAAGTTAGTGAAAATTT
64 TAACATTTTATATTTAGATGCATTTCTCATTTAATTAGTTCATAACTACAAGTTAGTGAAAA-TC
* * * *
9025795 TCGATTAATTTTATGCAAAAATTGAAATTTAAACTTTCAATACATTAGTGATTTCAAATTGTGCA
128 CCGATTAATTTTATGCAAAAATTGAAATTTGAACTTTCAATACATTAGTGATCTCAAATTGTACA
*
9025860 ATCCTTCATTGTCAGGCAAGATAAGAATACAAAGGTTTTGGCAGCCCACAACTCCAATAGAACAA
193 ATCCTTCATTGTCAGGCAAGATAAGAATACAAAGGTTTTGGCAGCCAACAACTCCAATAGAACAA
* *
9025925 GATACACTTTTAAGCCTTAACTTCCTAGCAACATATACTAAGGTATGCATACTAACACATGTTTT
258 GATACACTTTTAAGCCTTAACTTCCTAGCAACAAATACTAAGATATGCATACTAACACATGTTTT
* * *
9025990 ACTATATTGAAAAAAAATTATATGTATTTTATAACAATCTCTTCAATCCTTAGAATGTTAATGTA
323 ACTATATTGAAAAAAAATAATATGTA-TTTATAACAATCACTTCAATCCTTAGAATGTTAACGTA
*
9026055 AGTATATGAATATTTTTTCTATTGCCATACAAAACAACTTCATTCACGTTGACTTG-AACGCTTA
387 AGTATATGAATATTTTTTCTATTGCCATACAAAACAACTTCATTCAAGTTGACTTGAAACGCTTA
* * * * *
9026119 TTAATAACATTGTACACACAAATTTTGAGTTGAAAGTTCACTTGCAAGTTTAGAACCAAATTTAT
452 TTAAAAACATTGTACAAACAAATTTTGAGTCGAAAGTTCACTTGAAAATTTAGAACCAAATTTAT
*
9026184 TGATAACTTTGAAAAGAAAACTACAATATCTACAAATTTCTTAAATACAAAGAAAAATA-TCATT
517 TGATAACTTTGAAAAGAAAACTACAATATATACAAATTTCTTAAATACAAAGAAAAATATTC-TT
* * *
9026248 TGATTCTTCTCTCCGATTTGACTTTTTTCCAAAGGTCATTTGACTAGATCTTAGACGAGTGTGGA
581 TGATTCTTCTCTCCGATTTAACTTTTATCCAAAGGTCATTTGACTAGATCTTAGACGAGTGCGGA
* * * * *
9026313 GTGCTTCAAGTGTCATGTTGATTTTCTTTTGAAACAGGTTTGAACGTCCTTTCTTCAGTTGAAAC
646 GTGCTTCAAGTGTCATGTTGACTTGCTTTTGAAACAGGTTTAAACCTCCTGTCTTCAGTTGAAAC
* * * *
9026378 GGATCGAAAGGCGGCTTTCTCTAGAAACGACTTTTGGG
711 AGATCGAAAGGCAGCTTTCTCTAGAAAAGACTCTTGGG
* *
9026416 TTCTTCTCCAT-GACATGAACTTGTCGATTGCTACAAAAATTAGTTTATTCTCAACTTCCATTAA
1 TTCTTCTCCATAG-CATGAAGTT-TCGATTGTTACAAAAATTAGTTTATTCTCAACTTCCATTAA
* * *
9026480 TAACATTTTATATTTAGATGCATTT-TGCATTTGATTAATTCATAACTACAAGTTAGAGAAAAAT
64 TAACATTTTATATTTAGATGCATTTCT-CATTTAATTAGTTCATAACTACAAGTTAGTG-AAAAT
* *
9026544 CCCGATCAATTTTATGAAAAAATTGAAATTTGAACTTTCAATA
127 CCCGATTAATTTTATGCAAAAATTGAAATTTGAACTTTCAATA
9026587 TGTTACTGGT
Statistics
Matches: 833, Mismatches: 75, Indels: 25
0.89 0.08 0.03
Matches are distributed among these distances:
748 15 0.02
749 407 0.49
750 307 0.37
751 104 0.12
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (748 bp):
TTCTTCTCCATAGCATGAAGTTTCGATTGTTACAAAAATTAGTTTATTCTCAACTTCCATTAATA
ACATTTTATATTTAGATGCATTTCTCATTTAATTAGTTCATAACTACAAGTTAGTGAAAATCCCG
ATTAATTTTATGCAAAAATTGAAATTTGAACTTTCAATACATTAGTGATCTCAAATTGTACAATC
CTTCATTGTCAGGCAAGATAAGAATACAAAGGTTTTGGCAGCCAACAACTCCAATAGAACAAGAT
ACACTTTTAAGCCTTAACTTCCTAGCAACAAATACTAAGATATGCATACTAACACATGTTTTACT
ATATTGAAAAAAAATAATATGTATTTATAACAATCACTTCAATCCTTAGAATGTTAACGTAAGTA
TATGAATATTTTTTCTATTGCCATACAAAACAACTTCATTCAAGTTGACTTGAAACGCTTATTAA
AAACATTGTACAAACAAATTTTGAGTCGAAAGTTCACTTGAAAATTTAGAACCAAATTTATTGAT
AACTTTGAAAAGAAAACTACAATATATACAAATTTCTTAAATACAAAGAAAAATATTCTTTGATT
CTTCTCTCCGATTTAACTTTTATCCAAAGGTCATTTGACTAGATCTTAGACGAGTGCGGAGTGCT
TCAAGTGTCATGTTGACTTGCTTTTGAAACAGGTTTAAACCTCCTGTCTTCAGTTGAAACAGATC
GAAAGGCAGCTTTCTCTAGAAAAGACTCTTGGG
Found at i:9026897 original size:21 final size:21
Alignment explanation
Indices: 9026873--9026914 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
9026863 TCCTACCAAA
**
9026873 ATTTTACTCTTTCATTTACTT
1 ATTTTACTCTCCCATTTACTT
9026894 ATTTTACTCTCCCATTTACTT
1 ATTTTACTCTCCCATTTACTT
9026915 TTTCTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.24, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTTACTCTCCCATTTACTT
Found at i:9027132 original size:17 final size:19
Alignment explanation
Indices: 9027101--9027148 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 19
9027091 CATTTACTTT
*
9027101 CCCTCAAAC-TTTTA-TTC
1 CCCTAAAACTTTTTATTTC
9027118 CCC-AAAACTTTTTATTTC
1 CCCTAAAACTTTTTATTTC
*
9027136 CCCTTAAACTTTT
1 CCCTAAAACTTTT
9027149 ACTTCTCACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 4 0.15
17 8 0.31
18 6 0.23
19 8 0.31
ACGTcount: A:0.25, C:0.31, G:0.00, T:0.44
Consensus pattern (19 bp):
CCCTAAAACTTTTTATTTC
Found at i:9027149 original size:18 final size:17
Alignment explanation
Indices: 9027101--9027149 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
9027091 CATTTACTTT
*
9027101 CCCTCAAACTTTTATTC
1 CCCTAAAACTTTTATTC
9027118 CCC-AAAACTTTTTATTTC
1 CCCTAAAAC-TTTTA-TTC
*
9027136 CCCTTAAACTTTTA
1 CCCTAAAACTTTTA
9027150 CTTCTCACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 4 0.15
17 8 0.30
18 11 0.41
19 4 0.15
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.43
Consensus pattern (17 bp):
CCCTAAAACTTTTATTC
Found at i:9030558 original size:35 final size:34
Alignment explanation
Indices: 9030512--9030677 Score: 183
Period size: 35 Copynumber: 4.8 Consensus size: 34
9030502 TTTCCTCATT
* *
9030512 GAAATACCATACCTACATTTTACAACTCGGTATGG
1 GAAATACCATACCTACGTTTTACAACTCAGTAT-G
* *
9030547 GAAATGCCATACCTACGTTTCT-TAACTCAGTATG
1 GAAATACCATACCTACGTTT-TACAACTCAGTATG
*
9030581 GATAATACCATACCTACGTTTCACAACTCAGTATG
1 GA-AATACCATACCTACGTTTTACAACTCAGTATG
* *
9030616 GTTAATACCATACCTACATTTCT-CAACTCAGTATG
1 G-AAATACCATACCTACGTTT-TACAACTCAGTATG
* *
9030651 GATGATACCATACCTACGTTTCACAAC
1 GA-AATACCATACCTACGTTTTACAAC
9030678 CTTGCCATGG
Statistics
Matches: 110, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
34 3 0.03
35 106 0.96
36 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (34 bp):
GAAATACCATACCTACGTTTTACAACTCAGTATG
Found at i:9030595 original size:70 final size:70
Alignment explanation
Indices: 9030514--9030677 Score: 247
Period size: 70 Copynumber: 2.3 Consensus size: 70
9030504 TCCTCATTGA
* * * * * *
9030514 AATACCATACCTACATTTTACAACTCGGTATGGGAAATGCCATACCTACGTTTCTTAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACCTACATTTCTCAACTCAGTA
9030579 TGGAT
66 TGGAT
**
9030584 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACATTTCTCAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACCTACATTTCTCAACTCAGTA
9030649 TGGAT
66 TGGAT
*
9030654 GATACCATACCTACGTTTCACAAC
1 AATACCATACCTACGTTTCACAAC
9030678 CTTGCCATGG
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 85 1.00
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (70 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACCTACATTTCTCAACTCAGTA
TGGAT
Found at i:9032390 original size:70 final size:70
Alignment explanation
Indices: 9032277--9032440 Score: 247
Period size: 70 Copynumber: 2.3 Consensus size: 70
9032267 TCCTCATTGA
* * ** * *
9032277 AATACCATACCTACATTTTACAACTTGGTATGGGAAATTCCATACCTACGTTTCTTAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCTCAACTCAGTA
9032342 TGGAT
66 TGGAT
**
9032347 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCTCAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCTCAACTCAGTA
9032412 TGGAT
66 TGGAT
*
9032417 GATACCATACCTACGTTTCACAAC
1 AATACCATACCTACGTTTCACAAC
9032441 CTTGCCATGG
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 85 1.00
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.32
Consensus pattern (70 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCTCAACTCAGTA
TGGAT
Found at i:9032459 original size:35 final size:35
Alignment explanation
Indices: 9032277--9032440 Score: 222
Period size: 35 Copynumber: 4.7 Consensus size: 35
9032267 TCCTCATTGA
* * **
9032277 AATACCATACCTACATTTTACAACTTGGTATGGGA-
1 AATACCATACCTACGTTTCACAACTCAGTAT-GGAT
* **
9032312 AATTCCATACCTACGTTTCTTAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
9032347 AATACCATACCTACGTTTCACAACTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
9032382 AATACCATACCTACGTTTCTCAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
9032417 GATACCATACCTACGTTTCACAAC
1 AATACCATACCTACGTTTCACAAC
9032441 CTTGCCATGG
Statistics
Matches: 113, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
34 3 0.03
35 110 0.97
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:9038119 original size:17 final size:17
Alignment explanation
Indices: 9038058--9038133 Score: 73
Period size: 18 Copynumber: 4.3 Consensus size: 17
9038048 CTCTATTTCC
* *
9038058 ATTATTTTTACTTCTTT
1 ATTATTTTAATTTCTTT
9038075 ATTATTTTATCATTT-TTT
1 ATTATTTTA--ATTTCTTT
*
9038093 ATTTTCTTTAATTTCTTT
1 ATTAT-TTTAATTTCTTT
*
9038111 ATTATTTTAATTTATTTT
1 ATTATTTTAATTT-CTTT
9038129 ATTAT
1 ATTAT
9038134 ACTTATTATT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
17 20 0.41
18 22 0.45
19 7 0.14
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTATTTTAATTTCTTT
Found at i:9038139 original size:27 final size:26
Alignment explanation
Indices: 9038109--9038162 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 26
9038099 TTTAATTTCT
*
9038109 TTATTATTT-TAATTTATTTTATTATAC
1 TTATTATTTCT-ATTTAATTTATT-TAC
9038136 TTATTATTTCTATTTAATTTATTTAC
1 TTATTATTTCTATTTAATTTATTTAC
9038162 T
1 T
9038163 CCATTTAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 4 0.16
27 20 0.80
28 1 0.04
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (26 bp):
TTATTATTTCTATTTAATTTATTTAC
Found at i:9038321 original size:19 final size:19
Alignment explanation
Indices: 9038289--9038327 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
9038279 TTTAGGTTAG
*
9038289 TATTTATTATTATTATTAT
1 TATTTATTACTATTATTAT
*
9038308 TATTTGTTACTATTATTAT
1 TATTTATTACTATTATTAT
9038327 T
1 T
9038328 TTGATTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (19 bp):
TATTTATTACTATTATTAT
Found at i:9044308 original size:3 final size:3
Alignment explanation
Indices: 9044300--9044349 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
9044290 TAAGAGTAAG
9044300 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9044348 AA
1 AA
9044350 AACAATTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9055858 original size:51 final size:51
Alignment explanation
Indices: 9055730--9055861 Score: 130
Period size: 51 Copynumber: 2.6 Consensus size: 51
9055720 TTTTATTTAT
* * * *
9055730 TATTTATCTCTT-ATTAATTT-AATTAATTAATTATAAGATAATCATATGA
1 TATTTATCTCTTAATTAATTTAAATTAATTAGTGATAAGATAATAATATAA
* ** *
9055779 TA-TTATCACTTAATT-ATTCTATTTTTAATTAGTGATAATATAA-AATATAAA
1 TATTTATCTCTTAATTAATT-TA-AATTAATTAGTGATAAGATAATAATAT-AA
9055830 TATTTATCTCTTAATTAATTTAAATTAATTAG
1 TATTTATCTCTTAATTAATTTAAATTAATTAG
9055862 ATAAAAATAA
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
48 11 0.17
49 6 0.09
50 4 0.06
51 27 0.42
52 14 0.22
53 3 0.05
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (51 bp):
TATTTATCTCTTAATTAATTTAAATTAATTAGTGATAAGATAATAATATAA
Found at i:9058168 original size:67 final size:67
Alignment explanation
Indices: 9058058--9058188 Score: 167
Period size: 67 Copynumber: 2.0 Consensus size: 67
9058048 ATGAGGGATC
* *
9058058 GATATGAAAAGAAGAAGAATGGCAGCTCATAGTGACTATATAAACGAATGATTAACTGTGTACCA
1 GATATGAAAAGAAGAAGAATGGCAGCTCATACTGACTACATAAACGAATGATTAACTGTGTACCA
9058123 AT
66 AT
* * * * *
9058125 GATATG-AAAGAAGGAAGAATGGTAGCTCATACTGAC-AGCATAAAGGATTGATTGATTGTGTAC
1 GATATGAAAAGAA-GAAGAATGGCAGCTCATACTGACTA-CATAAACGAATGATTAACTGTGTAC
9058188 C
64 C
9058189 CATAGAACAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
66 7 0.13
67 48 0.87
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.24
Consensus pattern (67 bp):
GATATGAAAAGAAGAAGAATGGCAGCTCATACTGACTACATAAACGAATGATTAACTGTGTACCA
AT
Found at i:9059561 original size:14 final size:13
Alignment explanation
Indices: 9059534--9059559 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9059524 GACAAGATTA
9059534 AAAAAAATAATTT
1 AAAAAAATAATTT
9059547 AAAAAAATAATTT
1 AAAAAAATAATTT
9059560 TATTACCAAT
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAAAATAATTT
Found at i:9059943 original size:42 final size:42
Alignment explanation
Indices: 9059884--9059969 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
9059874 CAATTATTGG
9059884 TAAGTTTCTTTTTTAGTTATTCAACTATGAAAAGTTGCAAAA
1 TAAGTTTCTTTTTTAGTTATTCAACTATGAAAAGTTGCAAAA
9059926 TAAGTTTCTTTTTTAGTTATTCAACTATGAAAAGTTGCAAAA
1 TAAGTTTCTTTTTTAGTTATTCAACTATGAAAAGTTGCAAAA
9059968 TA
1 TA
9059970 GTAATCTAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (42 bp):
TAAGTTTCTTTTTTAGTTATTCAACTATGAAAAGTTGCAAAA
Found at i:9063104 original size:36 final size:37
Alignment explanation
Indices: 9063010--9063106 Score: 124
Period size: 40 Copynumber: 2.6 Consensus size: 37
9063000 GTTATACTCT
**
9063010 CTATCTAGTGTGTTTCAGTTGGACTAGCTCTTATGAG
1 CTATCTAGTGTGTTTTGGTTGGACTAGCTCTTATGAG
* *
9063047 CTTTTGTCTGGTGTGTTTTGGTTGGACTAGCTCTTATGAG
1 C---TATCTAGTGTGTTTTGGTTGGACTAGCTCTTATGAG
9063087 C-ATCTAGTGTGTTTTGGTTG
1 CTATCTAGTGTGTTTTGGTTG
9063107 ATCTGACGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
36 17 0.33
37 1 0.02
40 33 0.65
ACGTcount: A:0.13, C:0.13, G:0.28, T:0.45
Consensus pattern (37 bp):
CTATCTAGTGTGTTTTGGTTGGACTAGCTCTTATGAG
Found at i:9070150 original size:40 final size:40
Alignment explanation
Indices: 9070093--9070211 Score: 184
Period size: 40 Copynumber: 3.0 Consensus size: 40
9070083 ATGCTCTCTA
*
9070093 TCTGGTGTGTTTCGGTTGGACTAGCTCTTATAAGCTTCTG
1 TCTGGTGTGTTTCGGTTGGACTAGCTCTTATAAGCATCTG
* * *
9070133 TTTGGTGTATTTCGGTTGGACTAGCTCTTATGAGCATCTG
1 TCTGGTGTGTTTCGGTTGGACTAGCTCTTATAAGCATCTG
* *
9070173 TCTGGTGTGTTTCGATTGGACTAGCTCTTATGAGCATCT
1 TCTGGTGTGTTTCGGTTGGACTAGCTCTTATAAGCATCT
9070212 AGTGTGTTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.14, C:0.17, G:0.27, T:0.42
Consensus pattern (40 bp):
TCTGGTGTGTTTCGGTTGGACTAGCTCTTATAAGCATCTG
Found at i:9072672 original size:44 final size:43
Alignment explanation
Indices: 9072531--9072688 Score: 191
Period size: 42 Copynumber: 3.7 Consensus size: 43
9072521 AACTCGTATA
*
9072531 ATGCCAACGTCCCAGACGTGGTCTTACA-GT-AATCAAATATTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATA-TG
* * *
9072573 ATGCC-ACTGTCCCAAACAGGGTCTTACATG-AAATCAAATATG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCAAATATG
*
9072615 ATGCCAACATCCCAGACATGGTCTTACACGTAAATCATAAT-TCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA-AATAT-G
*
9072659 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
9072689 ATAACACATA
Statistics
Matches: 100, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
41 2 0.02
42 47 0.47
43 19 0.19
44 32 0.32
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAATATG
Found at i:9078575 original size:9 final size:9
Alignment explanation
Indices: 9078557--9078593 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
9078547 TTATATTTGA
*
9078557 TATTCAAAT
1 TATTCGAAT
9078566 TATTCGAAT
1 TATTCGAAT
*
9078575 TATTCGAGT
1 TATTCGAAT
9078584 TATTCGAAT
1 TATTCGAAT
9078593 T
1 T
9078594 CAAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:9078660 original size:9 final size:9
Alignment explanation
Indices: 9078646--9078676 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
9078636 TTTCAAGTTG
9078646 ACTCGAATA
1 ACTCGAATA
*
9078655 ACTCGATTA
1 ACTCGAATA
9078664 ACTCGAATA
1 ACTCGAATA
9078673 ACTC
1 ACTC
9078677 AATTCGTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.26
Consensus pattern (9 bp):
ACTCGAATA
Found at i:9081191 original size:21 final size:21
Alignment explanation
Indices: 9081160--9081209 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
9081150 CTATCCCAAA
9081160 GCACATA-ATTCATATACATTT
1 GCACATATATTCA-ATACATTT
* *
9081181 -CCCATATATTCAATTCATTT
1 GCACATATATTCAATACATTT
9081201 GCACATATA
1 GCACATATA
9081210 GCATACTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (21 bp):
GCACATATATTCAATACATTT
Found at i:9081453 original size:43 final size:44
Alignment explanation
Indices: 9081403--9081675 Score: 242
Period size: 43 Copynumber: 6.2 Consensus size: 44
9081393 TGTACAATAC
*
9081403 GTGGTCTTATATGTAATCAAATATCGATGCC-ACTGTCCCAGACA
1 GTGGTCTTACATGTAATCAAATATCGATGCCAAC-GTCCCAGACA
* * * *
9081447 G-GGTCTTACATGAAATCAAATA-CGATGCCTACGTCCTAG-CC
1 GTGGTCTTACATGTAATCAAATATCGATGCCAACGTCCCAGACA
* * *
9081488 GTGGTCTTACATGTAAATCATATAAGTTGATGCCAACATCCCAGAC-
1 GTGGTCTTACATGT-AATCAAAT-A-TCGATGCCAACGTCCCAGACA
*
9081534 GTGGTCTTATATGTAATCAAATATCGATGCC-ACTGTCCCAGACA
1 GTGGTCTTACATGTAATCAAATATCGATGCCAAC-GTCCCAGACA
* * * * *
9081578 -AGGTCTTACATGAAATCAAATA-CGATGCCTACGTCCTAG-CC
1 GTGGTCTTACATGTAATCAAATATCGATGCCAACGTCCCAGACA
* * * *
9081619 GTGGTCTTACATGTAAATTATATAAGTTGATGCCAACGTCCCAAAC-
1 GTGGTCTTACATGT-AATCAAAT-A-TCGATGCCAACGTCCCAGACA
9081665 GTGGTCTTACA
1 GTGGTCTTACA
9081676 CAATAACACA
Statistics
Matches: 186, Mismatches: 27, Indels: 30
0.77 0.11 0.12
Matches are distributed among these distances:
41 3 0.02
42 50 0.27
43 70 0.38
44 4 0.02
45 7 0.04
46 50 0.27
47 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (44 bp):
GTGGTCTTACATGTAATCAAATATCGATGCCAACGTCCCAGACA
Found at i:9081635 original size:131 final size:131
Alignment explanation
Indices: 9081401--9081673 Score: 510
Period size: 131 Copynumber: 2.1 Consensus size: 131
9081391 CTTGTACAAT
*
9081401 ACGTGGTCTTATATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACATGAAATCAA
1 ACGTGGTCTTATATGTAATCAAATATCGATGCCACTGTCCCAGACAAGGTCTTACATGAAATCAA
9081466 ATACGATGCCTACGTCCTAGCCGTGGTCTTACATGTAAATCATATAAGTTGATGCCAACATCCCA
66 ATACGATGCCTACGTCCTAGCCGTGGTCTTACATGTAAATCATATAAGTTGATGCCAACATCCCA
*
9081531 G
131 A
9081532 ACGTGGTCTTATATGTAATCAAATATCGATGCCACTGTCCCAGACAAGGTCTTACATGAAATCAA
1 ACGTGGTCTTATATGTAATCAAATATCGATGCCACTGTCCCAGACAAGGTCTTACATGAAATCAA
* *
9081597 ATACGATGCCTACGTCCTAGCCGTGGTCTTACATGTAAATTATATAAGTTGATGCCAACGTCCCA
66 ATACGATGCCTACGTCCTAGCCGTGGTCTTACATGTAAATCATATAAGTTGATGCCAACATCCCA
9081662 A
131 A
9081663 ACGTGGTCTTA
1 ACGTGGTCTTA
9081674 CACAATAACA
Statistics
Matches: 138, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
131 138 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.28
Consensus pattern (131 bp):
ACGTGGTCTTATATGTAATCAAATATCGATGCCACTGTCCCAGACAAGGTCTTACATGAAATCAA
ATACGATGCCTACGTCCTAGCCGTGGTCTTACATGTAAATCATATAAGTTGATGCCAACATCCCA
A
Found at i:9082286 original size:20 final size:20
Alignment explanation
Indices: 9082261--9082303 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
9082251 AAAGACAAAA
9082261 CTTAGAAATCTAACACATAT
1 CTTAGAAATCTAACACATAT
9082281 CTTAGAAATCTAACACATAT
1 CTTAGAAATCTAACACATAT
9082301 CTT
1 CTT
9082304 TAATTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (20 bp):
CTTAGAAATCTAACACATAT
Found at i:9086057 original size:16 final size:17
Alignment explanation
Indices: 9086026--9086058 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9086016 TTCATCAGTA
9086026 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
9086043 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
9086059 GCACCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:9086406 original size:46 final size:46
Alignment explanation
Indices: 9086354--9086663 Score: 460
Period size: 46 Copynumber: 6.7 Consensus size: 46
9086344 TGTCATAGTG
* * * *
9086354 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
* ** * * *
9086400 TCTTTCAATCATGGTCTTATTCATTTCATGTCACGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
* ** *
9086446 TGTTTCAACCATGGTCTTATTCATTTCATATCAGGTTGCTATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
9086492 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
9086538 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
9086584 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
9086630 TCTTTCAACCATGGTCTTACATATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
9086664 AGAGCACACT
Statistics
Matches: 245, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 4 0.02
46 241 0.98
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:9094353 original size:26 final size:26
Alignment explanation
Indices: 9094315--9094379 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
9094305 TGGCTATCTA
* *
9094315 GAGC-TCCCGATTAAAGGCTC-TTCGT
1 GAGCTTCCTGATTAAAAGCTCGTT-GT
*
9094340 GAGCTTCCTGATTAAAAGTTCGTTGT
1 GAGCTTCCTGATTAAAAGCTCGTTGT
*
9094366 GAACTTCCTGATTA
1 GAGCTTCCTGATTA
9094380 TATCTCTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.12
26 28 0.82
27 2 0.06
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (26 bp):
GAGCTTCCTGATTAAAAGCTCGTTGT
Found at i:9094459 original size:26 final size:26
Alignment explanation
Indices: 9094428--9094484 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
9094418 CTTCTTGAAA
9094428 GGCTCTTTGTGAGCTTCCCGATTA-AT
1 GGCTCTTTGTGAG-TTCCCGATTATAT
* *
9094454 GGCTCTTTGTGAGTTTCCTATTATAT
1 GGCTCTTTGTGAGTTCCCGATTATAT
9094480 GGCTC
1 GGCTC
9094485 AACAGAAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.14, C:0.21, G:0.23, T:0.42
Consensus pattern (26 bp):
GGCTCTTTGTGAGTTCCCGATTATAT
Found at i:9098235 original size:29 final size:30
Alignment explanation
Indices: 9098174--9098236 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
9098164 TACACTTTAA
* **
9098174 TAAAAATAATAAAAATTTAATATAACTCTT
1 TAAAAATAATAAAAATATAATATAACTAAT
* *
9098204 TAAAAATTATAAAAATATATTA-AACTAAT
1 TAAAAATAATAAAAATATAATATAACTAAT
9098233 TAAA
1 TAAA
9098237 TTATATTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (30 bp):
TAAAAATAATAAAAATATAATATAACTAAT
Found at i:9110184 original size:2 final size:2
Alignment explanation
Indices: 9110177--9110212 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9110167 TTCTATAATA
9110177 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
9110213 TAGATTTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9120744 original size:2 final size:2
Alignment explanation
Indices: 9120737--9120765 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9120727 GAGTAAAATA
9120737 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9120766 GTTGCTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9125043 original size:31 final size:31
Alignment explanation
Indices: 9125005--9125067 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
9124995 TACCACCATG
9125005 ATGTTATGTTAATATTATTTTGGTATCAATA
1 ATGTTATGTTAATATTATTTTGGTATCAATA
9125036 ATGTTATGTTAATATTATTTTGGTATCAATA
1 ATGTTATGTTAATATTATTTTGGTATCAATA
9125067 A
1 A
9125068 ATATTCAACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (31 bp):
ATGTTATGTTAATATTATTTTGGTATCAATA
Found at i:9125180 original size:23 final size:22
Alignment explanation
Indices: 9125154--9125207 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
9125144 ATATAAATTT
*
9125154 TAAATAT-TTTAAAATAATTAATA
1 TAAATATATATAAAAT--TTAATA
*
9125177 TAAATTATATATAAAATTTAATT
1 TAAA-TATATATAAAATTTAATA
9125200 TAAATATA
1 TAAATATA
9125208 AAAATCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 4 0.15
23 13 0.48
24 3 0.11
25 7 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TAAATATATATAAAATTTAATA
Found at i:9125755 original size:23 final size:23
Alignment explanation
Indices: 9125703--9125755 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
9125693 TACATTTCTT
* * *
9125703 TAAA-TATATTTAAATTTATTAA
1 TAAATTATATGTAAACTTAATAA
* *
9125725 TTAGTTATATGTAAACTTAATAA
1 TAAATTATATGTAAACTTAATAA
9125748 TAAATTAT
1 TAAATTAT
9125756 TGTCATACAT
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (23 bp):
TAAATTATATGTAAACTTAATAA
Found at i:9128131 original size:25 final size:23
Alignment explanation
Indices: 9128079--9128133 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
9128069 TATAAATAGT
9128079 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
9128102 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
9128127 AATAGTG
1 AATAGTG
9128134 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:9128214 original size:22 final size:22
Alignment explanation
Indices: 9128189--9128263 Score: 78
Period size: 22 Copynumber: 3.3 Consensus size: 22
9128179 TATGAAATAG
*
9128189 ATATAAAAAAAATATGTACATA
1 ATATAAAAAAAATATATACATA
*
9128211 ATATAGTATAAAAAATACATACATA
1 ATATA--A-AAAAAATATATACATA
**
9128236 ATATAATTAAAATATATACATA
1 ATATAAAAAAAATATATACATA
*
9128258 AGATAA
1 ATATAA
9128264 CATGTAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
22 23 0.52
23 1 0.02
24 1 0.02
25 19 0.43
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.29
Consensus pattern (22 bp):
ATATAAAAAAAATATATACATA
Found at i:9128233 original size:25 final size:25
Alignment explanation
Indices: 9128195--9128405 Score: 130
Period size: 25 Copynumber: 8.4 Consensus size: 25
9128185 ATAGATATAA
*
9128195 AAAAAATATGTACATAATATAGTAT
1 AAAAAATATATACATAATATAGTAT
*
9128220 AAAAAATACATACATAATATA--AT
1 AAAAAATATATACATAATATAGTAT
* * *
9128243 -TAAAATATATACATAAGATAACATGTAA
1 AAAAAATATATACAT-A-AT-ATA-GTAT
*
9128271 AAAATATATATATAAATAATATAGTAT
1 AAAA-A-ATATATACATAATATAGTAT
* * *
9128298 TAAAGATATATACATAAAATAGTAT
1 AAAAAATATATACATAATATAGTAT
* * * *
9128323 AATATATATATACGTAATATAGAAT
1 AAAAAATATATACATAATATAGTAT
** * *
9128348 -TTAGA-ATATACCTAATATA-T-T
1 AAAAAATATATACATAATATAGTAT
* *
9128369 AAAAGAATATATATATAATATAATATT
1 AAAA-AATATATACATAATATAGTA-T
9128396 AAAAAATATA
1 AAAAAATATA
9128406 ATAATAACAA
Statistics
Matches: 142, Mismatches: 29, Indels: 29
0.71 0.14 0.14
Matches are distributed among these distances:
21 1 0.01
22 13 0.09
23 17 0.12
24 17 0.12
25 59 0.42
26 6 0.04
27 11 0.08
28 3 0.02
29 4 0.03
30 2 0.01
31 9 0.06
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.33
Consensus pattern (25 bp):
AAAAAATATATACATAATATAGTAT
Found at i:9128274 original size:27 final size:28
Alignment explanation
Indices: 9128208--9128315 Score: 86
Period size: 27 Copynumber: 4.0 Consensus size: 28
9128198 AAATATGTAC
* *
9128208 ATAATATAGTAT-AAAA-A-ATACATAC
1 ATAACATAGTATAAAAATATATACATAA
* *
9128233 ATAATATA--ATTAAAATATATACATAA
1 ATAACATAGTATAAAAATATATACATAA
*
9128259 GATAACAT-GTA-AAAAATATATATATAA
1 -ATAACATAGTATAAAAATATATACATAA
* *
9128286 ATAATATAGTATTAAAGATATATACATAA
1 ATAACATAGTA-TAAAAATATATACATAA
9128315 A
1 A
9128316 ATAGTATAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
23 2 0.03
24 4 0.06
25 9 0.13
26 13 0.19
27 23 0.34
28 1 0.01
29 15 0.22
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (28 bp):
ATAACATAGTATAAAAATATATACATAA
Found at i:9128734 original size:16 final size:16
Alignment explanation
Indices: 9128696--9128734 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9128686 TCTCCAAAAA
*
9128696 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
9128712 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
9128728 AATAACT
1 AAAAACT
9128735 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:9128975 original size:30 final size:30
Alignment explanation
Indices: 9128892--9128990 Score: 146
Period size: 30 Copynumber: 3.3 Consensus size: 30
9128882 TAGGTACAAG
*
9128892 TGGTGGTGGAGCAAGTGTGGCTAAT-AGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGA-AGT
*
9128922 AGGTGGTGGAGCAAGTGTGGCTAGTGAAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGAAGT
* *
9128952 TGGTGGTGGAGCAAGTGTGGCTAGAGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGAAGT
9128982 TGGTGGTGG
1 TGGTGGTGG
9128991 CAAAGGCTAG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
30 62 0.98
31 1 0.02
ACGTcount: A:0.20, C:0.06, G:0.48, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGAAGT
Found at i:9129895 original size:91 final size:89
Alignment explanation
Indices: 9129682--9130190 Score: 442
Period size: 91 Copynumber: 5.7 Consensus size: 89
9129672 AAAAACAGAA
* ** * *
9129682 ATTGAAAATAGCTCAGCACGTGAGCC-AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
1 ATTGAAAATACCTCAGCGTGTGA-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * *
9129746 --AAAACAAAATTTGTAAAACAGAT
65 GCAAAACAAAATTTGAAAAAAAAAT
* * ** * *
9129769 TTTGAAAATACCTCGGTATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTG
1 ATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
9129834 CAAAGCATAAA-TTGAAAAAAAAAT
66 CAAAACA-AAATTTGAAAAAAAAAT
* *
9129858 CAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 --ATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT
9129923 TTTG-ACAAACATAAA-TTGAAAAAAAGAA-
62 TTTGCA-AAACA-AAATTTGAAAAAAA-AAT
* *
9129951 ATTGAAAATATCTCAGCGTGT--CCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 ATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
* *
9130014 GGAAAAACAAAATTTGAAAAACAGAAT
65 -GCAAAACAAAATTTGAAAAA-AAAAT
* * * *
9130041 -TTGAAAATACCTCAGCGTGTGA-GTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTT
1 ATTGAAAATACCTCAGCGTGTGACCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
* *
9130104 TTG-AAACACAGAAA-TTGAAGAACAGAA-
63 TTGCAAA-ACA-AAATTTGAA-AAAAAAAT
* * * * *
9130131 ATGGAAAACACCTCAGC--GT--CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 ATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
9130191 TTTGAAAGAC
Statistics
Matches: 361, Mismatches: 37, Indels: 50
0.81 0.08 0.11
Matches are distributed among these distances:
85 5 0.01
86 2 0.01
87 83 0.23
88 10 0.03
89 86 0.24
90 9 0.02
91 128 0.35
92 12 0.03
93 24 0.07
94 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (89 bp):
ATTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
CAAAACAAAATTTGAAAAAAAAAT
Found at i:9130047 original size:13 final size:14
Alignment explanation
Indices: 9130015--9130047 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
9130005 TGATTTTTTG
9130015 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
9130029 GAAAAACAGAATTT
1 GAAAAACAAAATTT
9130043 GAAAA
1 GAAAA
9130048 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:9130047 original size:180 final size:172
Alignment explanation
Indices: 9129672--9131084 Score: 912
Period size: 148 Copynumber: 8.4 Consensus size: 172
9129662 ACTAGACATT
* ** * * *
9129672 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAG
* ** * * * *
9129737 TTGATTTTT-AAAACAAAATTTGTAAAACAGATTTTGAAAATACCTCGGTATGTGACCCGAGGCT
66 TTGATTTTTGAAAACAAAA-TTGAAAAACAGAAATTGAAAATACCTCAG--CGTGTCCTGAGGCT
*
9129801 CAACTCACCTCTCGTAATATGAGTTGATTTTTGCAAAGCATAAA-TTG
128 CAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAA-CA-AAATTTG
* * * *
9129848 AAAAAAAAATCAATTGAAAATACCTCGGCGTGTGATCTGAGGCTCAACTCACCTCTCGCAATATG
1 AAAAACAGA--AATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATG
* *
9129913 AGTTGATTTTTTTGACAAACATAAATTGAAAAAAAGAAATTGAAAATATCTCAGCGTGTCCTGAG
64 AGTTGA--TTTTTGA-AAACA-AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAG
*
9129978 GCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTGGAAAAACAAAATTTG
125 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT-G--AAACAAAATTTG
* *
9130030 AAAAACAGAATTTGAAAATACCTCAGCGTGTGAGTC-AAGGCTCAACTCACCACTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGA-TCTAAGGCTCAACTCACCTCTCGCAATATGA
* * * * *
9130094 GCTGATTTTTTTGAAACACAGAAATTGAAGAACAGAAATGGAAAACACCTCAGC--GTCTTGAGG
65 GTTGA--TTTTTGAAA-ACA-AAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGG
* *
9130157 TTCAACTCACCTCTCGCAATATGAGCTGATTTTT---------TTTG
126 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACAAAATTTG
* * * *
9130195 AAAGACAGAAATTGAAAATACCTCAACGTGT-CT-TGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAG
* * * *
9130258 TTGATTTTTG---AC---------AAACAAAAATTGAAATTACCTCAGC--GTCTTGAGGTTCAA
66 TTGATTTTTGAAAACAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAA
*
9130309 CTCACCTATCGCAATATGAGTTGA-TTTT---------TTTG
131 CTCACCTCTCGCAATATGAGTTGATTTTTGAAACAAAATTTG
* * * *
9130341 AAAAACAGAAATTG-AAATACCTCAACGTGT-CT-TGAGGTTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAG
* * * *
9130403 TTGATTTTT----------TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAA
66 TTGATTTTTGAAAACAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAA
9130458 CTCACCTCTCGCAATATGAGTTGATTTTTG--AC--------
131 CTCACCTCTCGCAATATGAGTTGATTTTTGAAACAAAATTTG
* * * * *
9130490 --AAACAAAAATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACCTATCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAG
* * *
9130551 TTGATTTTT----------TTGAAAAATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAA
66 TTGATTTTTGAAAACAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAA
* * *
9130606 CTCATCTCTTGCAATATGAGTTGAGTTTTG--AC--------
131 CTCACCTCTCGCAATATGAGTTGATTTTTGAAACAAAATTTG
* * * * *
9130638 --AAACAAAAATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACTTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAG
* *
9130699 TTGATTTTTTTAGAAACATAAATT-AAAAAAATGAAAATTGAAAATACCTCAGCGTGTCCTGAGG
66 TTGA-TTTTTGA-AAACA-AAATTGAAAAACA-G-AAATTGAAAATACCTCAGCGTGTCCTGAGG
* *
9130763 CTCAACTCACCTCTCGCAATATGAGTTGATTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
126 CTCAACTCACCTCTCGCAATATGAGTTGA-TT-----------TTTG-AA-ACAAAATTTG
** *
9130824 AAAAACAGAAATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAG
* * *
9130887 TTGATTTTTGAAAAATAGAAATTAAAAGCAGAAATTGAAAAATAGAAATTAAAAATACCTCGGCG
66 TTGA-TTTT------T-G-----AAAA-CA-AAATTGAAAAACAGAAATTGAAAATACCTCAGCG
* * *
9130952 TGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGCATAAA-TTG
116 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAA-CA-AAATTTG
* * *
9131011 AAAAA-ACGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATATGA
1 AAAAACA-GAAATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGA
9131075 GTTGATTTTT
65 GTTGATTTTT
9131085 TTGAAAGATA
Statistics
Matches: 1051, Mismatches: 97, Indels: 172
0.80 0.07 0.13
Matches are distributed among these distances:
145 56 0.05
146 21 0.02
147 88 0.08
148 186 0.18
149 41 0.04
150 4 0.00
157 2 0.00
160 6 0.01
161 9 0.01
162 55 0.05
163 32 0.03
165 32 0.03
174 4 0.00
176 7 0.01
177 5 0.00
178 87 0.08
179 2 0.00
180 133 0.13
181 11 0.01
182 42 0.04
183 6 0.01
186 3 0.00
187 36 0.03
188 70 0.07
189 38 0.04
194 1 0.00
198 2 0.00
199 57 0.05
200 9 0.01
201 6 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (172 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTGATCTAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGAAAACAAAATTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAA
CTCACCTCTCGCAATATGAGTTGATTTTTGAAACAAAATTTG
Found at i:9130458 original size:75 final size:74
Alignment explanation
Indices: 9130118--9130727 Score: 794
Period size: 73 Copynumber: 8.3 Consensus size: 74
9130108 AACACAGAAA
* * * *
9130118 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAA-AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
9130181 GCTGATTTTTT
65 GTTGA-TTTTT
9130192 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
9130257 GTTGA--TTT
65 GTTGATTTTT
* * * * *
9130265 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
9130328 GTTGATTTTT
65 GTTGATTTTT
*
9130338 TTGAAAAACAGAAATTG-AAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
9130402 GTTGATTTTT
65 GTTGATTTTT
*
9130412 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
9130477 GTTGA--TTT
65 GTTGATTTTT
* * * * *
9130485 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
9130550 GTTGATTTTT
65 GTTGATTTTT
* * *
9130560 TTGAAAAATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTTGCAATATGA
1 TTG-AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
9130625 GTTGA--GTT
65 GTTGATTTTT
* * * * *
9130633 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
9130698 GTTGATTTTT
65 GTTGATTTTT
* *
9130708 TT-AGAAACATAAATTAAAAA
1 TTGA-AAACAGAAATTGAAAA
9130728 AATGAAAATT
Statistics
Matches: 474, Mismatches: 44, Indels: 36
0.86 0.08 0.06
Matches are distributed among these distances:
71 37 0.08
72 10 0.02
73 173 0.36
74 97 0.20
75 119 0.25
76 38 0.08
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (74 bp):
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTT
Found at i:9130506 original size:220 final size:222
Alignment explanation
Indices: 9130118--9130707 Score: 942
Period size: 220 Copynumber: 2.7 Consensus size: 222
9130108 AACACAGAAA
* * * *
9130118 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
*
9130181 GCTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
66 GTTGATTTTTTTT-AAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
* *
9130246 TCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGC-GTCTTGAGGTTCAAC
130 TCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGGTCCTGAGGCTCAAC
9130310 TCACCTATCGCAATATGAGTTGATTTTT
195 TCACCTATCGCAATATGAGTTGATTTTT
9130338 TTGAAAAACAGAAATTG-AAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
9130402 GTTGATTTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
66 GTTGATTTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
9130467 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAC
131 CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCG-GTCCTGAGGCTCAAC
9130532 TCACCTATCGCAATATGAGTTGATTTTT
195 TCACCTATCGCAATATGAGTTGATTTTT
* * * *
9130560 TTGAAAAATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
* * * * * * *
9130625 GTTGA--GTTTTGACAA-ACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTC
66 GTTGATTTTTTTTA-AAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
9130687 TCGCAATATGAGTTGATTTTT
130 TCGCAATATGAGTTGATTTTT
9130708 TTAGAAACAT
Statistics
Matches: 346, Mismatches: 18, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
219 8 0.02
220 116 0.34
221 114 0.33
222 59 0.17
223 49 0.14
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (222 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGGTCCTGAGGCTCAACT
CACCTATCGCAATATGAGTTGATTTTT
Found at i:9130942 original size:13 final size:13
Alignment explanation
Indices: 9130897--9130943 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
9130887 TTGATTTTTG
9130897 AAAAATAGAAATT
1 AAAAATAGAAATT
**
9130910 AAAAGCAGAAATT
1 AAAAATAGAAATT
9130923 GAAAAATAGAAATT
1 -AAAAATAGAAATT
9130937 AAAAATA
1 AAAAATA
9130944 CCTCGGCGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 18 0.62
14 11 0.38
ACGTcount: A:0.68, C:0.02, G:0.11, T:0.19
Consensus pattern (13 bp):
AAAAATAGAAATT
Found at i:9130962 original size:100 final size:101
Alignment explanation
Indices: 9130725--9131014 Score: 417
Period size: 100 Copynumber: 2.9 Consensus size: 101
9130715 CATAAATTAA
*
9130725 AAAAAT-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAATAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
9130789 TGA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
65 TGATTTTTGAAAAACAGAAATTGAAAAGCAAAAATTG
*
9130824 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAATAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
9130889 GATTTTTGAAAAATAGAAATT-AAAAGCAGAAATTG
66 GATTTTTGAAAAACAGAAATTGAAAAGCAAAAATTG
* * * *
9130924 AAAAATAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAATAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
9130989 GATTTTTGAAAAGCATAAATTGAAAA
66 GATTTTTGAAAAACAGAAATTGAAAA
9131015 AACGAAATTG
Statistics
Matches: 171, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
99 63 0.37
100 90 0.53
101 18 0.11
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (101 bp):
AAAAATAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAACAGAAATTGAAAAGCAAAAATTG
Found at i:9131010 original size:87 final size:89
Alignment explanation
Indices: 9130910--9131084 Score: 257
Period size: 89 Copynumber: 2.0 Consensus size: 89
9130900 AATAGAAATT
* * *
9130910 AAAAGCAGAAATTGAAAAATA-GAAATTAAAAATACCTC-G-GCGTGCCCCGAGGCTCAGCTCAC
1 AAAAGCAGAAATTGAAAAA-ACGAAATTAAAAATACCTCAGCGCGTGACCCGAGGCCCAACTCAC
9130972 CTCTCGCAATATGAGTTGATTTTTG
65 CTCTCGCAATATGAGTTGATTTTTG
* * * *
9130997 AAAAGCATAAATTGAAAAAACGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACC
1 AAAAGCAGAAATTGAAAAAACGAAATTAAAAATACCTCAGCGCGTGACCCGAGGCCCAACTCACC
9131062 TCTCGCAATATGAGTTGATTTTT
66 TCTCGCAATATGAGTTGATTTTT
9131085 TTGAAAGATA
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
86 1 0.01
87 34 0.44
88 1 0.01
89 42 0.54
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.25
Consensus pattern (89 bp):
AAAAGCAGAAATTGAAAAAACGAAATTAAAAATACCTCAGCGCGTGACCCGAGGCCCAACTCACC
TCTCGCAATATGAGTTGATTTTTG
Found at i:9139509 original size:14 final size:14
Alignment explanation
Indices: 9139485--9139525 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
9139475 CCAATTCAAT
*
9139485 TTCATTAGAAGAAC
1 TTCACTAGAAGAAC
*
9139499 TTTACTAGAAGAAC
1 TTCACTAGAAGAAC
9139513 TTCACTAGAAGAA
1 TTCACTAGAAGAA
9139526 AATTTTCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (14 bp):
TTCACTAGAAGAAC
Found at i:9143158 original size:25 final size:23
Alignment explanation
Indices: 9143106--9143160 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
9143096 TATAAGTAGT
9143106 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
9143129 TATAGTGTTTGAAGCATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
9143154 AATAGTG
1 AATAGTG
9143161 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.05, G:0.16, T:0.35
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:9143337 original size:25 final size:24
Alignment explanation
Indices: 9143223--9143429 Score: 126
Period size: 25 Copynumber: 8.7 Consensus size: 24
9143213 TAGATATAAA
* * *
9143223 AAAATATGTACATAATATAGTGTAA
1 AAAATATATACATAATATAGTAT-T
*
9143248 AAAATACATACATAATATA--ATT
1 AAAATATATACATAATATAGTATT
* **
9143270 AAAATATATACATAAGATAACATGTAGA
1 AAAATATATACAT-A-AT-ATA-GTATT
* *
9143298 AAAATAAATAAATAATATAGTATT
1 AAAATATATACATAATATAGTATT
*
9143322 AAAGATATATACATAAAATAGTA-T
1 AAA-ATATATACATAATATAGTATT
* * *
9143346 AATATATATACGTAATATAGAATT
1 AAAATATATACATAATATAGTATT
* * *
9143370 TAGA-ATATACCT-A-ATA-TATT
1 AAAATATATACATAATATAGTATT
* *
9143390 AAAATAATATATATAATATAATATT
1 AAAAT-ATATACATAATATAGTATT
9143415 AAAA-ATATA-ATAATA
1 AAAATATATACATAATA
9143430 ACAAAAAAAA
Statistics
Matches: 141, Mismatches: 28, Indels: 29
0.71 0.14 0.15
Matches are distributed among these distances:
20 5 0.04
21 3 0.02
22 25 0.18
23 31 0.22
24 17 0.12
25 45 0.32
26 2 0.01
27 1 0.01
28 12 0.09
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (24 bp):
AAAATATATACATAATATAGTATT
Found at i:9143412 original size:14 final size:14
Alignment explanation
Indices: 9143381--9143426 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
9143371 AGAATATACC
*
9143381 TAATATAT-TAAAA
1 TAATATATATAATA
9143394 TAATATATATAATA
1 TAATATATATAATA
*
9143408 TAATAT-TAAAAATA
1 TAATATAT-ATAATA
9143422 TAATA
1 TAATA
9143427 ATAACAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 9 0.31
14 20 0.69
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATATATATAATA
Found at i:9143752 original size:16 final size:16
Alignment explanation
Indices: 9143714--9143752 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9143704 TCTCTAAAAA
*
9143714 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
9143730 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
9143746 AATAACT
1 AAAAACT
9143753 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:9143949 original size:30 final size:30
Alignment explanation
Indices: 9143915--9144038 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
9143905 ACAAGTGGTA
*
9143915 GTGGAGCAAGTGTGGCTAATGGAGTAGGTG
1 GTGGAGCAAGTGTGGCTAGTGGAGTAGGTG
9143945 GTGGAGCAAGTGTGGCTAGTGGAGTAGGTG
1 GTGGAGCAAGTGTGGCTAGTGGAGTAGGTG
* *
9143975 GTGAAGCAAGTGTAGCTAGTGGAGTAGGTG
1 GTGGAGCAAGTGTGGCTAGTGGAGTAGGTG
* *
9144005 GTGGAGCAAGTATGGCTAGTGGAGTTGGTG
1 GTGGAGCAAGTGTGGCTAGTGGAGTAGGTG
9144035 GTGG
1 GTGG
9144039 CAAAGGCTAG
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 87 1.00
ACGTcount: A:0.22, C:0.06, G:0.48, T:0.24
Consensus pattern (30 bp):
GTGGAGCAAGTGTGGCTAGTGGAGTAGGTG
Found at i:9148725 original size:46 final size:44
Alignment explanation
Indices: 9148621--9148728 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
9148611 TGTCTTTGAC
** * * *
9148621 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
9148665 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
9148711 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
9148729 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:9154677 original size:46 final size:44
Alignment explanation
Indices: 9154573--9154680 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
9154563 TGTCTTTGAC
** * * *
9154573 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
9154617 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
9154663 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
9154681 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:9156439 original size:23 final size:22
Alignment explanation
Indices: 9156413--9156465 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
9156403 ATATAAATTT
9156413 TAAATATTT-TAAAATAATTAATA
1 TAAATATTTATAAAAT--TTAATA
*
9156436 TAAATCATTTATAAAATTTAATT
1 TAAAT-ATTTATAAAATTTAATA
9156459 TAAATAT
1 TAAATAT
9156466 AACAATCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 2 0.07
23 15 0.56
24 4 0.15
25 6 0.22
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TAAATATTTATAAAATTTAATA
Found at i:9157051 original size:23 final size:23
Alignment explanation
Indices: 9156999--9157051 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
9156989 TATATTTATT
* * *
9156999 TAAA-TATATTTAAATTTATTAA
1 TAAATTATATGTAAACTTAATAA
* *
9157021 TTAGTTATATGTAAACTTAATAA
1 TAAATTATATGTAAACTTAATAA
9157044 TAAATTAT
1 TAAATTAT
9157052 TGTCATAGAT
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (23 bp):
TAAATTATATGTAAACTTAATAA
Found at i:9163463 original size:43 final size:42
Alignment explanation
Indices: 9163368--9163468 Score: 114
Period size: 43 Copynumber: 2.4 Consensus size: 42
9163358 GACTTCTATT
* *
9163368 TTACGTGTAAGACCATGTCTGGGATATTGGCATCATTAATCGA
1 TTACGTGTAAGACCATGTCTGGGACAGTGGCATCATT-ATCGA
* * *
9163411 TTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATGT-TTGA
1 TTACGTGTAAGACCATGTCTGGGACAGTGGCATC-AT-TATCGA
*
9163454 TTACATGTAAGACCA
1 TTACGTGTAAGACCA
9163469 CATCTACATT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
43 45 0.94
44 2 0.04
45 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGACAGTGGCATCATTATCGA
Found at i:9164711 original size:42 final size:42
Alignment explanation
Indices: 9164618--9164711 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
9164608 GCTTAGGCAT
* * *
9164618 ACGGGCGTGACTAATGCCATGTGAGGCACATGGCCTATTCAC
1 ACGGGCGTGTCTAATACCATGTGAGGCACACGGCCTATTCAC
* * * *
9164660 ACGGGCGTGTCTAATACCGTGTGAGGCATACGGTCTGTTCAC
1 ACGGGCGTGTCTAATACCATGTGAGGCACACGGCCTATTCAC
*
9164702 TCGGGCGTGT
1 ACGGGCGTGT
9164712 GACACTTGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.19, C:0.24, G:0.32, T:0.24
Consensus pattern (42 bp):
ACGGGCGTGTCTAATACCATGTGAGGCACACGGCCTATTCAC
Found at i:9170626 original size:14 final size:14
Alignment explanation
Indices: 9170617--9170646 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9170607 AGATGATGTG
9170617 ATCAAAATGATGCA
1 ATCAAAATGATGCA
9170631 ATCAAAATGATGCA
1 ATCAAAATGATGCA
9170645 AT
1 AT
9170647 AGAGGCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.23
Consensus pattern (14 bp):
ATCAAAATGATGCA
Found at i:9171123 original size:19 final size:19
Alignment explanation
Indices: 9171086--9171123 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9171076 CTAGAGTTGA
*
9171086 ATTTTATTTTTTTTCTAAT
1 ATTTTATTTATTTTCTAAT
9171105 ATTTTATGTTATTTT-TAAT
1 ATTTTAT-TTATTTTCTAAT
9171124 GCTTTTGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (19 bp):
ATTTTATTTATTTTCTAAT
Found at i:9181135 original size:51 final size:52
Alignment explanation
Indices: 9181057--9181282 Score: 307
Period size: 51 Copynumber: 4.3 Consensus size: 52
9181047 ACTTCTGATT
*
9181057 AGTGACAAGTGATAAGTAGTAG-TTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTAGTAGCTTCTAGCTACACTTATCTGATCAGTGACA
9181108 AGTGACAAGTGATAAGTAGTAGCTT-TAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTAGTAGCTTCTAGCTACACTTATCTGATCAGTGACA
** * *
9181159 AGTGGTAAGTGATAAGTGGTAGCTTCTA-CTACACTTATCTAATCAGTGACA
1 AGTGACAAGTGATAAGTAGTAGCTTCTAGCTACACTTATCTGATCAGTGACA
*
9181210 AGTGATAAGTGATAAGTGATAAGTGGTAGCTTCT-GCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAA--G-T-A---GTAGCTTCTAGCTACACTTATCTGATCAGTGACA
9181268 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
9181283 ATGTGATCAG
Statistics
Matches: 157, Mismatches: 8, Indels: 13
0.88 0.04 0.07
Matches are distributed among these distances:
51 106 0.68
52 4 0.03
53 1 0.01
54 1 0.01
58 45 0.29
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (52 bp):
AGTGACAAGTGATAAGTAGTAGCTTCTAGCTACACTTATCTGATCAGTGACA
Found at i:9181176 original size:58 final size:58
Alignment explanation
Indices: 9181101--9181296 Score: 239
Period size: 58 Copynumber: 3.5 Consensus size: 58
9181091 TTATCTGATC
* *
9181101 AGTGACAAGTGACAAGTGATAAGTAGTAGCTT-TAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGATAAGT-GTAGCTTCTAGCTACACTTATCTGATCAGTGACA
* *
9181159 AGTGGTAAGTGATAA--G-T--G-GTAGCTTCTA-CTACACTTATCTAATCAGTGACA
1 AGTGATAAGTGATAAGTGATAAGTGTAGCTTCTAGCTACACTTATCTGATCAGTGACA
9181210 AGTGATAAGTGATAAGTGATAAGTGGTAGCTTCT-GCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGATAAGT-GTAGCTTCTAGCTACACTTATCTGATCAGTGACA
* *
9181268 AGTGACAAGTGATAAATGTGATCAGTGTA
1 AGTGATAAGTGAT-AA-GTGATAAGTGTA
9181297 AAATCGTGGC
Statistics
Matches: 119, Mismatches: 8, Indels: 21
0.80 0.05 0.14
Matches are distributed among these distances:
51 43 0.36
52 2 0.02
53 2 0.02
54 1 0.01
55 1 0.01
56 2 0.02
58 55 0.46
59 5 0.04
60 8 0.07
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (58 bp):
AGTGATAAGTGATAAGTGATAAGTGTAGCTTCTAGCTACACTTATCTGATCAGTGACA
Found at i:9181219 original size:7 final size:7
Alignment explanation
Indices: 9181203--9181234 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
9181193 TTATCTAATC
*
9181203 AGTGACA
1 AGTGATA
9181210 AGTGATA
1 AGTGATA
9181217 AGTGATA
1 AGTGATA
9181224 AGTGATA
1 AGTGATA
9181231 AGTG
1 AGTG
9181235 GTAGCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.41, C:0.03, G:0.31, T:0.25
Consensus pattern (7 bp):
AGTGATA
Found at i:9181660 original size:12 final size:12
Alignment explanation
Indices: 9181643--9181692 Score: 100
Period size: 12 Copynumber: 4.2 Consensus size: 12
9181633 TTGTAGATTG
9181643 ACGTGGAAGTAT
1 ACGTGGAAGTAT
9181655 ACGTGGAAGTAT
1 ACGTGGAAGTAT
9181667 ACGTGGAAGTAT
1 ACGTGGAAGTAT
9181679 ACGTGGAAGTAT
1 ACGTGGAAGTAT
9181691 AC
1 AC
9181693 CAGATTATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.34, C:0.10, G:0.32, T:0.24
Consensus pattern (12 bp):
ACGTGGAAGTAT
Found at i:9183823 original size:20 final size:20
Alignment explanation
Indices: 9183795--9183835 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
9183785 AATTTTTCAC
*
9183795 AGTATAAATAATGTTTCCAG
1 AGTACAAATAATGTTTCCAG
9183815 AGTACAAATAATGTTTCCAG
1 AGTACAAATAATGTTTCCAG
9183835 A
1 A
9183836 TCTTCAAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (20 bp):
AGTACAAATAATGTTTCCAG
Found at i:9196675 original size:46 final size:46
Alignment explanation
Indices: 9196622--9196714 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
9196612 GAGGGGCACG
9196622 TGTGTCTGTGCCGCATCATGCCCTTCCTTGACTGGTGGCTGCACTA
1 TGTGTCTGTGCCGCATCATGCCCTTCCTTGACTGGTGGCTGCACTA
9196668 TGTGTCTGTGCCGCATCATGCCCTTCCTTGACTGGTGGCTGCACTA
1 TGTGTCTGTGCCGCATCATGCCCTTCCTTGACTGGTGGCTGCACTA
9196714 T
1 T
9196715 CTCAACAACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.11, C:0.30, G:0.26, T:0.33
Consensus pattern (46 bp):
TGTGTCTGTGCCGCATCATGCCCTTCCTTGACTGGTGGCTGCACTA
Found at i:9197300 original size:73 final size:73
Alignment explanation
Indices: 9197216--9197352 Score: 199
Period size: 73 Copynumber: 1.9 Consensus size: 73
9197206 TGTTTAGTTC
*
9197216 ATTTATGTTTACAAACAAACTTATTTATTTATCTATTCGT-T-TATAAACTCATTTAATT-AAAA
1 ATTTATATTTACAAACAAACTTATTTATTTATCTA-TC-TATATATAAACTCATTT-ATTCAAAA
9197278 ATATTCGATTT
63 ATATTCGATTT
* *
9197289 ATTTATATTTACAAATAAACTTGTTTATTTATCTATCTATATATAAACTCATTTATTCAAAAAT
1 ATTTATATTTACAAACAAACTTATTTATTTATCTATCTATATATAAACTCATTTATTCAAAAAT
9197353 GATATTTTCC
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
71 1 0.02
72 6 0.10
73 51 0.88
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (73 bp):
ATTTATATTTACAAACAAACTTATTTATTTATCTATCTATATATAAACTCATTTATTCAAAAATA
TTCGATTT
Found at i:9197571 original size:16 final size:18
Alignment explanation
Indices: 9197538--9197573 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
9197528 GTGTTTCTTT
9197538 ATAAAATTCAAGTTTTTA
1 ATAAAATTCAAGTTTTTA
9197556 ATAAAA-TCAA-TTTTTA
1 ATAAAATTCAAGTTTTTA
9197572 AT
1 AT
9197574 GTTTTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 4 0.22
18 6 0.33
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (18 bp):
ATAAAATTCAAGTTTTTA
Found at i:9203053 original size:2 final size:2
Alignment explanation
Indices: 9203046--9203084 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
9203036 TAAAATTCTG
9203046 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9203085 TATTTACTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9206164 original size:2 final size:2
Alignment explanation
Indices: 9206157--9206195 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9206147 TGAATATGTG
9206157 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9206196 AGATTATAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9206301 original size:21 final size:21
Alignment explanation
Indices: 9206247--9206306 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
9206237 ATTATCAATT
*
9206247 AATTAGTTTTTAAAATTTAAAA
1 AATTAGTTTTT-ATATTTAAAA
9206269 AATTA-TTTTTATTATTTAAAA
1 AATTAGTTTTTA-TATTTAAAA
9206290 AA-TAGTTTTTATATTTA
1 AATTAGTTTTTATATTTA
9206307 TTTTGAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
20 9 0.26
21 21 0.60
22 5 0.14
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
AATTAGTTTTTATATTTAAAA
Found at i:9209540 original size:35 final size:35
Alignment explanation
Indices: 9209500--9209577 Score: 147
Period size: 35 Copynumber: 2.2 Consensus size: 35
9209490 CTACAAGAAA
9209500 GCTTTTTCTTATCCTCATGAATCAGATAATAGTAT
1 GCTTTTTCTTATCCTCATGAATCAGATAATAGTAT
9209535 GCTTTTTCTTATCCTCATGAATCAGATAATAGTAT
1 GCTTTTTCTTATCCTCATGAATCAGATAATAGTAT
*
9209570 GCTATTTC
1 GCTTTTTC
9209578 CTATGCTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.44
Consensus pattern (35 bp):
GCTTTTTCTTATCCTCATGAATCAGATAATAGTAT
Found at i:9213484 original size:20 final size:21
Alignment explanation
Indices: 9213459--9213498 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
9213449 AAATTAAAAA
9213459 TTAATTAAATT-ATATGATAT
1 TTAATTAAATTAATATGATAT
*
9213479 TTAATTAATTTAATATGATA
1 TTAATTAAATTAATATGATA
9213499 ATATATTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
TTAATTAAATTAATATGATAT
Found at i:9213502 original size:24 final size:25
Alignment explanation
Indices: 9213457--9213507 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
9213447 GAAAATTAAA
*
9213457 AATTAATTAAATTATATGATAT-TT
1 AATTAATTAAATTATATAATATATT
*
9213481 AATTAATTTAA-TATGATAATATATT
1 AATTAATTAAATTAT-ATAATATATT
9213506 AA
1 AA
9213508 GTATAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 3 0.13
24 16 0.70
25 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (25 bp):
AATTAATTAAATTATATAATATATT
Found at i:9213606 original size:31 final size:31
Alignment explanation
Indices: 9213571--9213633 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
9213561 TTTTAACATT
*
9213571 TTTAATACAATAATAAATTATATTTAAATAA
1 TTTAATACAATAATAAATGATATTTAAATAA
* *
9213602 TTTAATATAATGATAAATGATATTTAAATAA
1 TTTAATACAATAATAAATGATATTTAAATAA
9213633 T
1 T
9213634 GGGTCAACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (31 bp):
TTTAATACAATAATAAATGATATTTAAATAA
Found at i:9213632 original size:15 final size:15
Alignment explanation
Indices: 9213582--9213632 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
9213572 TTAATACAAT
9213582 AATAAATTATATTTA
1 AATAAATTATATTTA
* *
9213597 AATAATTTA-ATATA
1 AATAAATTATATTTA
*
9213611 ATGATAAATGATATTTA
1 A--ATAAATTATATTTA
9213628 AATAA
1 AATAA
9213633 TGGGTCAACT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
14 5 0.18
15 12 0.43
16 6 0.21
17 5 0.18
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (15 bp):
AATAAATTATATTTA
Found at i:9214533 original size:31 final size:31
Alignment explanation
Indices: 9214498--9214566 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
9214488 GCTAAACATC
*
9214498 TTAATGATTTAAATAAAAACTTTTGAATAGT
1 TTAATGATTTAAATAAAAACTTTCGAATAGT
*
9214529 TTAATGATTTAAATGAAAACTTTCGAATAGT
1 TTAATGATTTAAATAAAAACTTTCGAATAGT
*
9214560 TCAATGA
1 TTAATGA
9214567 CCAATTTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (31 bp):
TTAATGATTTAAATAAAAACTTTCGAATAGT
Found at i:9218839 original size:62 final size:62
Alignment explanation
Indices: 9218758--9218876 Score: 186
Period size: 62 Copynumber: 1.9 Consensus size: 62
9218748 AGGTTGCTGG
* * *
9218758 AATTTATTTTTTTTTAAGAGAAAATAAAATATAATTTTAGTTTAATTTT-ATTTGGGGTATT
1 AATTTATTTTATTTTAAGAGAAAACAAAATATAATTTTACTTTAATTTTAATTTGGGGTATT
*
9218819 AATTTATTTATATTTTAAGAGAAAACATAATATAATTTTACTTTAATTTTAATTTGGG
1 AATTTATTT-TATTTTAAGAGAAAACAAAATATAATTTTACTTTAATTTTAATTTGGG
9218877 ATTATAACTT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
61 9 0.17
62 36 0.69
63 7 0.13
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (62 bp):
AATTTATTTTATTTTAAGAGAAAACAAAATATAATTTTACTTTAATTTTAATTTGGGGTATT
Found at i:9220306 original size:106 final size:106
Alignment explanation
Indices: 9220121--9220347 Score: 404
Period size: 106 Copynumber: 2.2 Consensus size: 106
9220111 AGTTAGGAAG
9220121 TTAATGAATTTTTATGTGTTGATATAGTTGAACAAAAAGATGAATTAAGGGCTAAATTGATAGAA
1 TTAATGAATTTTTATGTGTTGATATAGTTGAACAAAAAGATGAATTAAGGGCTAAATTGATAGAA
9220186 ATTCAAGTTAGAAATGAAATAAGGATTGAATTGTAAAGTGA
66 ATTCAAGTTAGAAATGAAATAAGGATTGAATTGTAAAGTGA
*
9220227 TTAATGAATTTTTATGTGTTGAT-TAAGTTGAACAAAAAGATGAATTAAGGGCTAAATTGATATA
1 TTAATGAATTTTTATGTGTTGATAT-AGTTGAACAAAAAGATGAATTAAGGGCTAAATTGATAGA
9220291 AATTCAAGTTAGAAATGAAATAAGGATTGAATTGTAAAGTGA
65 AATTCAAGTTAGAAATGAAATAAGGATTGAATTGTAAAGTGA
* *
9220333 TTCAT-AAGTTTTATG
1 TTAATGAATTTTTATG
9220348 CTTTATGGAC
Statistics
Matches: 117, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
105 10 0.09
106 107 0.91
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.35
Consensus pattern (106 bp):
TTAATGAATTTTTATGTGTTGATATAGTTGAACAAAAAGATGAATTAAGGGCTAAATTGATAGAA
ATTCAAGTTAGAAATGAAATAAGGATTGAATTGTAAAGTGA
Found at i:9221483 original size:20 final size:21
Alignment explanation
Indices: 9221460--9221508 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
9221450 AATTATATTC
9221460 AATTGAAAAAAAATAT-AATT
1 AATTGAAAAAAAATATGAATT
**
9221480 AATT-AATTAAAATATGAATT
1 AATTGAAAAAAAATATGAATT
9221500 AATTGAAAA
1 AATTGAAAA
9221509 CTGAAAAGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 9 0.39
20 12 0.52
21 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (21 bp):
AATTGAAAAAAAATATGAATT
Found at i:9221913 original size:18 final size:18
Alignment explanation
Indices: 9221892--9222082 Score: 131
Period size: 18 Copynumber: 10.6 Consensus size: 18
9221882 TAACTGATTA
9221892 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* * *
9221910 TTACCGGATAAGTGACTG
1 TTACTGAATAATTGACTG
*
9221928 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
9221946 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
9221964 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
9221982 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
** *
9222000 CCACTAAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
9222018 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
* *
9222037 TTACCGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
*
9222054 TTACTGAATAATTGACTT
1 TTACTGAATAATTGACTG
*
9222072 TTACTGGATAA
1 TTACTGAATAA
9222083 CCTATCAATT
Statistics
Matches: 137, Mismatches: 26, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
17 18 0.13
18 102 0.74
19 17 0.12
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:9229195 original size:4 final size:4
Alignment explanation
Indices: 9229186--9229210 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
9229176 CCTAACATGT
9229186 AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA A
9229211 ATGAATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:9236954 original size:22 final size:22
Alignment explanation
Indices: 9236926--9236978 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
9236916 ATTAAGGTGA
9236926 AAGGAAATAATAAGGAAAAGCC
1 AAGGAAATAATAAGGAAAAGCC
9236948 AAGGAAATAATAAGGAAAAGCC
1 AAGGAAATAATAAGGAAAAGCC
9236970 AAGGTAAAT
1 AAGG-AAAT
9236979 TCCATGCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 26 0.87
23 4 0.13
ACGTcount: A:0.58, C:0.08, G:0.23, T:0.11
Consensus pattern (22 bp):
AAGGAAATAATAAGGAAAAGCC
Found at i:9237480 original size:23 final size:24
Alignment explanation
Indices: 9237429--9237481 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 24
9237419 CGAATAAAAT
*
9237429 TTCAGATTTTAAGAGTTTATTCAAA
1 TTCA-ATTTTAAGAGTTTAATCAAA
9237454 -TCAATTTTAA-A-TTTAATCGAAA
1 TTCAATTTTAAGAGTTTAATC-AAA
9237476 TTCAAT
1 TTCAAT
9237482 ATGAATCTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 6 0.24
22 4 0.16
23 12 0.48
24 3 0.12
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (24 bp):
TTCAATTTTAAGAGTTTAATCAAA
Found at i:9245701 original size:21 final size:21
Alignment explanation
Indices: 9245675--9245740 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
9245665 TAGAATCATA
9245675 TGTCATCTTGGACAACTGATT
1 TGTCATCTTGGACAACTGATT
* * *
9245696 TGTCAT-TAT--AGAA-TCATA
1 TGTCATCT-TGGACAACTGATT
*
9245714 CGTCATCTTGGACAACTGATT
1 TGTCATCTTGGACAACTGATT
9245735 TGTCAT
1 TGTCAT
9245741 TATAGATTTA
Statistics
Matches: 32, Mismatches: 8, Indels: 10
0.64 0.16 0.20
Matches are distributed among these distances:
18 9 0.28
19 4 0.12
20 4 0.12
21 15 0.47
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (21 bp):
TGTCATCTTGGACAACTGATT
Found at i:9245719 original size:39 final size:39
Alignment explanation
Indices: 9245664--9245746 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 39
9245654 GAAGAAGAAG
*
9245664 ATAGAATCATATGTCATCTTGGACAACTGATTTGTCATT
1 ATAGAATCATACGTCATCTTGGACAACTGATTTGTCATT
9245703 ATAGAATCATACGTCATCTTGGACAACTGATTTGTCATT
1 ATAGAATCATACGTCATCTTGGACAACTGATTTGTCATT
9245742 ATAGA
1 ATAGA
9245747 TTTAGATAGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (39 bp):
ATAGAATCATACGTCATCTTGGACAACTGATTTGTCATT
Found at i:9254032 original size:18 final size:19
Alignment explanation
Indices: 9254011--9254046 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9254001 TTTTTCTTTT
9254011 AAAAGTA-TTTTTTAAGCC
1 AAAAGTATTTTTTTAAGCC
9254029 AAAAGTATTTTTTTAAGC
1 AAAAGTATTTTTTTAAGC
9254047 AATACTAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.39, C:0.08, G:0.11, T:0.42
Consensus pattern (19 bp):
AAAAGTATTTTTTTAAGCC
Found at i:9254320 original size:6 final size:6
Alignment explanation
Indices: 9254309--9254339 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
9254299 AATAATTTAC
9254309 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
9254340 TTAATTAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:9254419 original size:42 final size:42
Alignment explanation
Indices: 9254360--9254445 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
9254350 AATAATAAAA
9254360 ATCCAGATCAATCGATTTGTACTACTTCGTAAGTTAATTGAT
1 ATCCAGATCAATCGATTTGTACTACTTCGTAAGTTAATTGAT
*
9254402 ATCCAGATCAATCGATTTGTAGTACTTCGTAAGTTAATTGAT
1 ATCCAGATCAATCGATTTGTACTACTTCGTAAGTTAATTGAT
9254444 AT
1 AT
9254446 TTTATCACTC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (42 bp):
ATCCAGATCAATCGATTTGTACTACTTCGTAAGTTAATTGAT
Found at i:9258884 original size:30 final size:30
Alignment explanation
Indices: 9258849--9258906 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
9258839 TAGGCACTTC
* *
9258849 CACACGGGTGAT-CCACATGCCTGTGTGTGA
1 CACACGGGT-ATACCACACGCCCGTGTGTGA
9258879 CACACGGGTATACCACACGCCCGTGTGT
1 CACACGGGTATACCACACGCCCGTGTGT
9258907 CATGGCCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.21, C:0.31, G:0.28, T:0.21
Consensus pattern (30 bp):
CACACGGGTATACCACACGCCCGTGTGTGA
Found at i:9260464 original size:9 final size:9
Alignment explanation
Indices: 9260450--9260474 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
9260440 AATGCTACAA
9260450 CAGTTTGTT
1 CAGTTTGTT
9260459 CAGTTTGTT
1 CAGTTTGTT
9260468 CAGTTTG
1 CAGTTTG
9260475 ATAGTTTGCA
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:0.12, C:0.12, G:0.24, T:0.52
Consensus pattern (9 bp):
CAGTTTGTT
Found at i:9262461 original size:145 final size:145
Alignment explanation
Indices: 9262209--9262500 Score: 584
Period size: 145 Copynumber: 2.0 Consensus size: 145
9262199 TTTTAGGTCG
9262209 TCCATTTTTAGCCACTGCTAGAGTTGTTATTGATGTGGGTGATTGTAAACTTGTACTTAGGGTAG
1 TCCATTTTTAGCCACTGCTAGAGTTGTTATTGATGTGGGTGATTGTAAACTTGTACTTAGGGTAG
9262274 GTGATGAAGAGATTATTTTTAAAATTTATAATGCCATGAGATTTTCTAGGGAACAGGATGGCTCA
66 GTGATGAAGAGATTATTTTTAAAATTTATAATGCCATGAGATTTTCTAGGGAACAGGATGGCTCA
9262339 TGTTATTTTGTTGAC
131 TGTTATTTTGTTGAC
9262354 TCCATTTTTAGCCACTGCTAGAGTTGTTATTGATGTGGGTGATTGTAAACTTGTACTTAGGGTAG
1 TCCATTTTTAGCCACTGCTAGAGTTGTTATTGATGTGGGTGATTGTAAACTTGTACTTAGGGTAG
9262419 GTGATGAAGAGATTATTTTTAAAATTTATAATGCCATGAGATTTTCTAGGGAACAGGATGGCTCA
66 GTGATGAAGAGATTATTTTTAAAATTTATAATGCCATGAGATTTTCTAGGGAACAGGATGGCTCA
9262484 TGTTATTTTGTTGAC
131 TGTTATTTTGTTGAC
9262499 TC
1 TC
9262501 TATTGATCAT
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
145 147 1.00
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (145 bp):
TCCATTTTTAGCCACTGCTAGAGTTGTTATTGATGTGGGTGATTGTAAACTTGTACTTAGGGTAG
GTGATGAAGAGATTATTTTTAAAATTTATAATGCCATGAGATTTTCTAGGGAACAGGATGGCTCA
TGTTATTTTGTTGAC
Found at i:9269965 original size:48 final size:48
Alignment explanation
Indices: 9269894--9270087 Score: 325
Period size: 48 Copynumber: 4.0 Consensus size: 48
9269884 CAAGACAAAT
* *
9269894 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
9269942 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
9269990 ATATGTATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
9270038 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
9270086 AT
1 AT
9270088 GTGTGTATAT
Statistics
Matches: 137, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 137 1.00
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:9271143 original size:13 final size:13
Alignment explanation
Indices: 9271125--9271153 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9271115 GGTTGTTTAT
9271125 TAAACTAATTAAC
1 TAAACTAATTAAC
9271138 TAAACTAATTAAC
1 TAAACTAATTAAC
9271151 TAA
1 TAA
9271154 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:9276817 original size:7 final size:6
Alignment explanation
Indices: 9276800--9276833 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
9276790 AATAAAATTG
*
9276800 AAATGA AAATAAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAAT-AA AAATAA AAATAA AAATAA AAA
9276834 GATAGGAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:9276822 original size:19 final size:19
Alignment explanation
Indices: 9276780--9276833 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
9276770 TATGTCTTTC
*
9276780 AAAA-GAAAATAATAAAATT
1 AAAATGAAAATAA-AAAATA
*
9276799 GAAATGAAAATAAAAAATA
1 AAAATGAAAATAAAAAATA
*
9276818 AAAATAAAAATAAAAA
1 AAAATGAAAATAAAAA
9276834 GATAGGAGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 22 0.73
20 8 0.27
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (19 bp):
AAAATGAAAATAAAAAATA
Found at i:9279859 original size:71 final size:71
Alignment explanation
Indices: 9279773--9279936 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
9279763 CGATTTGTCT
9279773 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
9279838 CTTTCA
66 CTTTCA
9279844 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
9279909 CTTTCA
66 CTTTCA
9279915 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
9279937 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:9279974 original size:71 final size:70
Alignment explanation
Indices: 9279773--9279970 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
9279763 CGATTTGTCT
* * * *
9279773 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
9279838 CTTTCA
65 CTTTCA
* * * *
9279844 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
9279909 CTTTCA
65 CTTTCA
* *
9279915 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
9279971 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:9285006 original size:22 final size:22
Alignment explanation
Indices: 9284956--9285007 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
9284946 CACCTCTACT
*
9284956 GTACCGAATGGAAAAATACTGA
1 GTACCGTATGGAAAAATACTGA
9284978 GTACCGTATGGAAAAATACTGA
1 GTACCGTATGGAAAAATACTGA
9285000 GTACCGTA
1 GTACCGTA
9285008 AGAGGGATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (22 bp):
GTACCGTATGGAAAAATACTGA
Found at i:9287760 original size:46 final size:46
Alignment explanation
Indices: 9287708--9287980 Score: 370
Period size: 46 Copynumber: 5.9 Consensus size: 46
9287698 AGTGTGCTCT
**
9287708 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
**
9287754 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
9287800 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
9287846 ATGACGA-GAGATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGA-TATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
9287892 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
9287938 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGC
1 CTGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGC
9287981 TTCATGTCAA
Statistics
Matches: 209, Mismatches: 15, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
45 2 0.01
46 206 0.99
47 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:9291702 original size:23 final size:23
Alignment explanation
Indices: 9291658--9291702 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9291648 ACCAATTCAA
*
9291658 CATATTTTAAAGATAAATTCATG
1 CATATTTTAAAGATAAAGTCATG
*
9291681 CATA-TTTATAAGATAACGTCAT
1 CATATTTTA-AAGATAAAGTCAT
9291703 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTAAAGATAAAGTCATG
Found at i:9293410 original size:43 final size:43
Alignment explanation
Indices: 9293349--9293434 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
9293339 TATGGTGAGT
9293349 TTTCAAAGTTAGTCTACTGCTGCTGTCCAAACTGTTTTTGTGC
1 TTTCAAAGTTAGTCTACTGCTGCTGTCCAAACTGTTTTTGTGC
9293392 TTTCAAAGTTAGTCTACTGCTGCTGTCCAAACTGTTTTTGTGC
1 TTTCAAAGTTAGTCTACTGCTGCTGTCCAAACTGTTTTTGTGC
9293435 AAGCTGTTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.42
Consensus pattern (43 bp):
TTTCAAAGTTAGTCTACTGCTGCTGTCCAAACTGTTTTTGTGC
Found at i:9305344 original size:14 final size:15
Alignment explanation
Indices: 9305315--9305347 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
9305305 CCTTCTCCTA
*
9305315 TTCTTCCATTCTCTT
1 TTCTTCCATCCTCTT
9305330 TTCTTCC-TCCTCTT
1 TTCTTCCATCCTCTT
9305344 TTCT
1 TTCT
9305348 CTTTCCCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.61
Consensus pattern (15 bp):
TTCTTCCATCCTCTT
Found at i:9307078 original size:24 final size:25
Alignment explanation
Indices: 9307026--9307080 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
9307016 TTTTCTTTTC
*
9307026 TTTTCTTTTCATTTTTATTTTAGCA
1 TTTTCTTTTCATCTTTATTTTAGCA
* *
9307051 -TTTCTTTTTATCTTTA-TTTATCA
1 TTTTCTTTTCATCTTTATTTTAGCA
9307074 TTTTCTT
1 TTTTCTT
9307081 AAAATTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.15, C:0.13, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTTCTTTTCATCTTTATTTTAGCA
Found at i:9314214 original size:52 final size:52
Alignment explanation
Indices: 9314147--9314350 Score: 230
Period size: 52 Copynumber: 3.9 Consensus size: 52
9314137 AACATGTGAC
* * *
9314147 ATGTGCTCCTATATAATACCATAGCTAGACTATGGCATCGGTGTGATGAGAT
1 ATGTGCTTCTATATAAGACCATAGCTAGACTATGGCATCAGTGTGATGAGAT
* * *
9314199 ATGTGCTTCTATATAAGACTATAGCTAGACTATGGCATCGGTGTGTTGAGAT
1 ATGTGCTTCTATATAAGACCATAGCTAGACTATGGCATCAGTGTGATGAGAT
* * * * * * **
9314251 ATGTGCTTTTGTATAAGACCATAGTTGGGCTATGGCATCAGTGAGATTTGATT
1 ATGTGCTTCTATATAAGACCATAGCTAGACTATGGCATCAGTGTGATGAGA-T
* * *
9314304 ATGTGCTTCTGTGTAAGACCATATCTAGGA-TATGGCATCAGTGTGAT
1 ATGTGCTTCTATATAAGACCATAGCTA-GACTATGGCATCAGTGTGAT
9314351 TTGTGATCCG
Statistics
Matches: 128, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
52 88 0.69
53 39 0.30
54 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.34
Consensus pattern (52 bp):
ATGTGCTTCTATATAAGACCATAGCTAGACTATGGCATCAGTGTGATGAGAT
Done.