Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 260 of 378
Found at i:78059543 original size:19 final size:19
Alignment explanation
Indices: 78059480--78059534 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
78059470 GTATGAGATC
*
78059480 GCACTTCGGTGCCTTTGTTT
1 GCACTT-GGTGCCTCTGTTT
*
78059500 GCACTTTGATGCCTCTGTTT
1 GCAC-TTGGTGCCTCTGTTT
78059520 GCACTTGGTGCCTCT
1 GCACTTGGTGCCTCT
78059535 ATTTCCACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.32
20 19 0.61
21 2 0.06
ACGTcount: A:0.07, C:0.27, G:0.24, T:0.42
Consensus pattern (19 bp):
GCACTTGGTGCCTCTGTTT
Found at i:78059555 original size:39 final size:40
Alignment explanation
Indices: 78059480--78059557 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 40
78059470 GTATGAGATC
* * * **
78059480 GCACTTCGGTGCCTTTGTTTGCACTTTGATGCCTCTGTTT
1 GCACTTCGGTGCCTCTATTTCCACTACGATGCCTCTGTTT
*
78059520 GCACTT-GGTGCCTCTATTTCCACTACGATGTCTCTGTT
1 GCACTTCGGTGCCTCTATTTCCACTACGATGCCTCTGTT
78059558 AGCATTTTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
39 26 0.81
40 6 0.19
ACGTcount: A:0.10, C:0.27, G:0.21, T:0.42
Consensus pattern (40 bp):
GCACTTCGGTGCCTCTATTTCCACTACGATGCCTCTGTTT
Found at i:78060900 original size:2 final size:2
Alignment explanation
Indices: 78060893--78060924 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
78060883 TGGTTATTTG
78060893 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
78060925 GAATTATGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78064592 original size:20 final size:20
Alignment explanation
Indices: 78064569--78064606 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
78064559 TAGTATTGTT
78064569 TTTAAGACAT-TTTTATTTAC
1 TTTAAGA-ATATTTTATTTAC
*
78064589 TTTAGGAATATTTTATTT
1 TTTAAGAATATTTTATTT
78064607 TATGCACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (20 bp):
TTTAAGAATATTTTATTTAC
Found at i:78071788 original size:27 final size:28
Alignment explanation
Indices: 78071753--78071826 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 28
78071743 TCAAATATGG
* *
78071753 CACTCAGTGTACGAAATATTGAGAA-CA
1 CACTTAGTGTGCGAAATATTGAGAATCA
* *
78071780 CACTTAGTGTGCGAGATATTGAGAATGA
1 CACTTAGTGTGCGAAATATTGAGAATCA
78071808 CACTTAGTGTGCGAAATAT
1 CACTTAGTGTGCGAAATAT
78071827 CGAATGATTC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (28 bp):
CACTTAGTGTGCGAAATATTGAGAATCA
Found at i:78078526 original size:28 final size:28
Alignment explanation
Indices: 78078494--78078566 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
78078484 TATGGCATTC
*
78078494 AGTGTACGAAATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
**
78078522 AGTGTGCGTGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
78078550 AGTGTGTGAAATATTGA
1 AGTGTGCGAAATATTGA
78078567 ATGATTCAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.32
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:78083578 original size:18 final size:16
Alignment explanation
Indices: 78083555--78083616 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 16
78083545 TCAGTAGCAT
78083555 TCAGTTACTCTATAACAG
1 TCAGTTA-TC-ATAACAG
78083573 TCAGTTATACAATAACAG
1 TCAGTTAT-C-ATAACAG
*
78083591 TCATTTATTCAGTAACAG
1 TCAGTTA-TCA-TAACAG
*
78083609 TCAATTAT
1 TCAGTTAT
78083617 TCCGTAGCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.08
18 34 0.89
19 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (16 bp):
TCAGTTATCATAACAG
Found at i:78083617 original size:18 final size:18
Alignment explanation
Indices: 78083566--78083618 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
78083556 CAGTTACTCT
* *
78083566 ATAACAGTCAGTTATACA
1 ATAACAGTCAATTATTCA
*
78083584 ATAACAGTCATTTATTCA
1 ATAACAGTCAATTATTCA
*
78083602 GTAACAGTCAATTATTC
1 ATAACAGTCAATTATTC
78083619 CGTAGCAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:78084968 original size:19 final size:19
Alignment explanation
Indices: 78084944--78084982 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
78084934 AATACTTATT
*
78084944 TATTATTTA-TACATGTGTA
1 TATTA-TTAGTACATATGTA
78084963 TATTATTAGTACATATGTA
1 TATTATTAGTACATATGTA
78084982 T
1 T
78084983 CCATATATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TATTATTAGTACATATGTA
Found at i:78085032 original size:15 final size:15
Alignment explanation
Indices: 78085006--78085067 Score: 60
Period size: 14 Copynumber: 4.3 Consensus size: 15
78084996 TACACTTGTC
78085006 TTTTAT-TTATTATA
1 TTTTATATTATTATA
78085020 TTTTATATTATTATA
1 TTTTATATTATTATA
* *
78085035 -TTAATA-TAATATA
1 TTTTATATTATTATA
*
78085048 CTTTA-ATTATTATTA
1 TTTTATATTATTA-TA
78085063 TTTTA
1 TTTTA
78085068 CTTATATATT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
13 7 0.18
14 18 0.46
15 14 0.36
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTATATTATTATA
Found at i:78085072 original size:15 final size:14
Alignment explanation
Indices: 78085006--78085078 Score: 51
Period size: 14 Copynumber: 5.0 Consensus size: 14
78084996 TACACTTGTC
78085006 TTTTATTTATTA-TA
1 TTTTA-TTATTATTA
78085020 TTTTA-TATTATTA
1 TTTTATTATTATTA
* * *
78085033 TATTAATATAATATA
1 TTTTATTATTAT-TA
*
78085048 CTTTAATTATTATTA
1 -TTTTATTATTATTA
78085063 TTTTACTTATATATTA
1 TTTTA-TTAT-TATTA
78085079 AGTAAATACA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
12 5 0.11
13 6 0.13
14 14 0.30
15 8 0.17
16 13 0.28
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTATTATTATTA
Found at i:78087598 original size:27 final size:27
Alignment explanation
Indices: 78087550--78087602 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
78087540 CTTGGCTAAG
* *
78087550 GTACTGAGGAAATGTGAAGAGACAAAA
1 GTACTGAAGAAATATGAAGAGACAAAA
* *
78087577 GTACTGAAGAGATATGAGGAGACAAA
1 GTACTGAAGAAATATGAAGAGACAAA
78087603 CCTTGGCCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.47, C:0.08, G:0.30, T:0.15
Consensus pattern (27 bp):
GTACTGAAGAAATATGAAGAGACAAAA
Found at i:78090947 original size:6 final size:6
Alignment explanation
Indices: 78090936--78091008 Score: 60
Period size: 6 Copynumber: 11.8 Consensus size: 6
78090926 TATCAAAACT
* *
78090936 AGAATC AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
78090985 AGGTAA-C AAAATC AAAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
78091009 GTGAATGCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
5 3 0.05
6 44 0.80
7 6 0.11
8 2 0.04
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:78090969 original size:25 final size:25
Alignment explanation
Indices: 78090941--78091008 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
78090931 AAACTAGAAT
*
78090941 CAGAATCAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
78090966 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
78090991 CAAAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
78091009 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:78091993 original size:27 final size:28
Alignment explanation
Indices: 78091794--78092114 Score: 364
Period size: 27 Copynumber: 11.9 Consensus size: 28
78091784 GGTATCTCGA
78091794 TAATTCTA-CTCTACAGGGGTATTTT-AG
1 TAATTCTACCT-TACAGGGGTATTTTCAG
* ** *
78091821 TATTTCTACCCCACAAGGGTA-TTTC-G
1 TAATTCTACCTTACAGGGGTATTTTCAG
*
78091847 ATAATTCTACCCTACAGGGGTA-TTTCAG
1 -TAATTCTACCTTACAGGGGTATTTTCAG
*
78091875 TAATTCTATCC-TACAGGGGTATTTT-GG
1 TAATTCTA-CCTTACAGGGGTATTTTCAG
78091902 TAATTCTACCTTACAGGGGTA-TTTCAG
1 TAATTCTACCTTACAGGGGTATTTTCAG
* *
78091929 TAATTCTACCTTACAAGGGTATTTT-GG
1 TAATTCTACCTTACAGGGGTATTTTCAG
* *
78091956 TAATTCTACCTTACAAGGGTATTTTGA-
1 TAATTCTACCTTACAGGGGTATTTTCAG
*
78091983 TAATTCTACCTTATAGGGGTA-TTTCAG
1 TAATTCTACCTTACAGGGGTATTTTCAG
* * *
78092010 TAATTGTACCTTATAGGGGT-GTTTCAG
1 TAATTCTACCTTACAGGGGTATTTTCAG
*
78092037 TAATTCTACCCTACAGGGGTA-TTTCAG
1 TAATTCTACCTTACAGGGGTATTTTCAG
*
78092064 TAATTCTACCCTACAGGGGTATTTT-AG
1 TAATTCTACCTTACAGGGGTATTTTCAG
*
78092091 TAATTCTACCTTACAAGGGTATTT
1 TAATTCTACCTTACAGGGGTATTT
78092115 CGTTAATTTT
Statistics
Matches: 259, Mismatches: 21, Indels: 28
0.84 0.07 0.09
Matches are distributed among these distances:
26 13 0.05
27 233 0.90
28 13 0.05
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.38
Consensus pattern (28 bp):
TAATTCTACCTTACAGGGGTATTTTCAG
Found at i:78092122 original size:81 final size:80
Alignment explanation
Indices: 78091782--78092122 Score: 416
Period size: 81 Copynumber: 4.2 Consensus size: 80
78091772 TTACCCCACG
* * * * *
78091782 AGGGTATCTCGATAATTCTACTCTACAGGGGTATTTTAGTATTTCTACCCCACAAGGGTATTTC-
1 AGGGTATTTCG-TAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCA
*
78091846 GATAATTCTACCCTACA
65 G-TAATTCTACCTTACA
* * * *
78091863 GGGGTATTTCAGTAATTCTATCCTACAGGGGTATTTTGGTAATTCTACCTTACAGGGGTATTTCA
1 AGGGTATTTC-GTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCA
78091928 GTAATTCTACCTTACA
65 GTAATTCTACCTTACA
* * * * *
78091944 AGGGTATTTTGGTAATTCTACCTTACAAGGGTATTTT-GATAATTCTACCTTATAGGGGTATTTC
1 AGGGTA-TTTCGTAATTCTACCCTACAGGGGTATTTTAG-TAATTCTACCCTACAGGGGTATTTC
* *
78092008 AGTAATTGTACCTTATA
64 AGTAATTCTACCTTACA
* * * *
78092025 GGGGTGTTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTA
1 AGGGTATTTC-GTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCA
78092090 GTAATTCTACCTTACA
65 GTAATTCTACCTTACA
78092106 AGGGTATTTCGTTAATT
1 AGGGTATTTCG-TAATT
78092123 TTGTAAATCG
Statistics
Matches: 222, Mismatches: 31, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
80 5 0.02
81 211 0.95
82 6 0.03
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (80 bp):
AGGGTATTTCGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAG
TAATTCTACCTTACA
Found at i:78092229 original size:81 final size:80
Alignment explanation
Indices: 78092161--78092465 Score: 351
Period size: 81 Copynumber: 3.8 Consensus size: 80
78092151 TGTAAATCGG
* * * * * *
78092161 GGGTACTTTGATAATTTTACAAGTCGAGGGTATTTTAGTAATTTTACAAATCAAGGGTATTTCAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT-GG
**
78092226 TAATTTTGCAAACTGA
65 TAATTTTGCAAACCAA
* * * * *
78092242 GGGTATTTCGGTAATTTCACAAATCAGGGGTATTTTACTAATTTTATAAACCAAGGGTATTGTGG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATT-TGG
*
78092307 TAATTTTGTAAACCAA
65 TAATTTTGCAAACCAA
* * *
78092323 GGGTATTTTGGTAATTTTACAAAACAAGGGTATTTTGGTAATTTTATAAACC-AGGGTTATTTTG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAACCAAGGG-TA-TTTG
* *
78092387 GTAATTTTACAAACCAG
64 GTAATTTTGCAAACCAA
** * * *
78092404 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTT
78092466 TAGTGATTTG
Statistics
Matches: 192, Mismatches: 28, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
80 7 0.04
81 179 0.93
82 6 0.03
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTGGT
AATTTTGCAAACCAA
Found at i:78092480 original size:54 final size:54
Alignment explanation
Indices: 78092142--78092481 Score: 349
Period size: 54 Copynumber: 6.3 Consensus size: 54
78092132 GAGGGTAAAA
* * ** * * ** *
78092142 TGGTAATTCTGTAAATCGGGGGTACTTTGATAATTTTACAAGTCGAGGGTATTT
1 TGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
* ** * ** * **
78092196 TAGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTGCAAACTGAGGGTATTT
1 TGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
* *** * * ** * *
78092250 CGGTAATTTCACAAATCAGGGGTATTTTACTAATTTTATAAACCAAGGGTATTG
1 TGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
*
78092304 TGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAAACAAGGGTATTT
1 TGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
* *
78092358 TGGTAATTTTATAAACC-AGGGTTATTTTGGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTGTAAACCAAGGG-TATTTTGGTAATTTTACAAACCAAGGGTATTT
*
78092412 TGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
* * *
78092466 TAGTGATTTGGTAAAC
1 TGGTAATTTTGTAAAC
78092482 TAAAGTATTC
Statistics
Matches: 241, Mismatches: 43, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
53 4 0.02
54 233 0.97
55 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
TGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
Found at i:78092481 original size:27 final size:27
Alignment explanation
Indices: 78092187--78092466 Score: 319
Period size: 27 Copynumber: 10.4 Consensus size: 27
78092177 TTACAAGTCG
* * *
78092187 AGGGTATTTTAGTAATTTTACAAATCA
1 AGGGTATTTTGGTAATTTTATAAACCA
** ** **
78092214 AGGGTATTTCAGTAATTTTGCAAACTG
1 AGGGTATTTTGGTAATTTTATAAACCA
* * * *
78092241 AGGGTATTTCGGTAATTTCACAAATCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* **
78092268 GGGGTATTTTACTAATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
78092295 AGGGTATTGTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
78092322 AGGGTATTTTGGTAATTTTACAAAACA
1 AGGGTATTTTGGTAATTTTATAAACCA
78092349 AGGGTATTTTGGTAATTTTATAAACC-
1 AGGGTATTTTGGTAATTTTATAAACCA
*
78092375 AGGGTTATTTTGGTAATTTTACAAACCA
1 AGGG-TATTTTGGTAATTTTATAAACCA
* *
78092403 GGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
*
78092430 AGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
*
78092457 GGGGTATTTT
1 AGGGTATTTT
78092467 AGTGATTTGG
Statistics
Matches: 214, Mismatches: 37, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
26 4 0.02
27 207 0.97
28 3 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAACCA
Found at i:78093805 original size:26 final size:26
Alignment explanation
Indices: 78093768--78093851 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
78093758 TGATACAAAT
* *
78093768 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
78093794 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
78093820 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
78093846 TGATAA
1 TGATAA
78093852 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:78108383 original size:17 final size:19
Alignment explanation
Indices: 78108343--78108384 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
78108333 GCATATGCAT
78108343 ATGT-AAAGAGTTGTGACTA
1 ATGTCAAAGAGTTGTGAC-A
78108362 ATGTCAAAGAGTTG-GA-A
1 ATGTCAAAGAGTTGTGACA
78108379 ATGTCA
1 ATGTCA
78108385 CCAACAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.32
19 6 0.27
20 9 0.41
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (19 bp):
ATGTCAAAGAGTTGTGACA
Found at i:78118963 original size:40 final size:41
Alignment explanation
Indices: 78118918--78119045 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 41
78118908 CGGAATACAA
78118918 CCGGATATTAGCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATTAGCACGTAGCACGAATGCCTTCGGGTCTTAGC
* * *
78118958 CCGGATA-GAACGAC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATTAGC-ACGTAGCACGAATGCCTTCGGGTCTTAGC
* *
78118998 CCGGAT-GTAGC-CGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATTAGCACG-TAGCACGAA-TGCCTTCGGGTCTTAGC
78119038 CCGGATAT
1 CCGGATAT
78119046 AATTTCCAGC
Statistics
Matches: 74, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
38 1 0.01
39 5 0.07
40 68 0.92
ACGTcount: A:0.21, C:0.29, G:0.27, T:0.23
Consensus pattern (41 bp):
CCGGATATTAGCACGTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:78122362 original size:18 final size:20
Alignment explanation
Indices: 78122316--78122355 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
78122306 TTAACTGTAA
78122316 ATCAATATTCATAAGGTTAT
1 ATCAATATTCATAAGGTTAT
78122336 ATCAATATTCATAAGGTTAT
1 ATCAATATTCATAAGGTTAT
78122356 CGATATTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
ATCAATATTCATAAGGTTAT
Found at i:78123374 original size:21 final size:22
Alignment explanation
Indices: 78123345--78123385 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
78123335 AGTAAAAGTC
78123345 ATTTCTCTAACCA-TAAACATGA
1 ATTTCTCT-ACCATTAAACATGA
78123367 ATTT-TCTACCATTAAACAT
1 ATTTCTCTACCATTAAACAT
78123386 CAAAATACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (22 bp):
ATTTCTCTACCATTAAACATGA
Found at i:78125513 original size:13 final size:13
Alignment explanation
Indices: 78125495--78125530 Score: 63
Period size: 13 Copynumber: 2.7 Consensus size: 13
78125485 ATTTAGCCAT
78125495 TTTTATTTTTTTG
1 TTTTATTTTTTTG
78125508 TTTTATTTTTTTG
1 TTTTATTTTTTTG
78125521 TTTTACTTTT
1 TTTTA-TTTT
78125531 AATTTACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 18 0.82
14 4 0.18
ACGTcount: A:0.08, C:0.03, G:0.06, T:0.83
Consensus pattern (13 bp):
TTTTATTTTTTTG
Found at i:78128639 original size:30 final size:30
Alignment explanation
Indices: 78128583--78128639 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
78128573 TCAGAGAGTT
*
78128583 ACACGGCCTGGCCACACGAGTGTGTGGAGC
1 ACACGGCCTGGCCACACGAGCGTGTGGAGC
78128613 ACACGGCCTGGCCACAC-AGACGTGTGG
1 ACACGGCCTGGCCACACGAG-CGTGTGG
78128640 GATCTCACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.21, C:0.32, G:0.35, T:0.12
Consensus pattern (30 bp):
ACACGGCCTGGCCACACGAGCGTGTGGAGC
Found at i:78128825 original size:22 final size:20
Alignment explanation
Indices: 78128767--78128818 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
78128757 ATCACCCCAA
*
78128767 TTTTATTTTATTTTATTTAT
1 TTTTATTTTATATTATTTAT
78128787 TTTTAATTGTTATATTATTTAT
1 TTTT-ATT-TTATATTATTTAT
78128809 TTTTATTTTA
1 TTTTATTTTA
78128819 CTAATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.24
21 6 0.21
22 16 0.55
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTATTTTATATTATTTAT
Found at i:78128886 original size:17 final size:17
Alignment explanation
Indices: 78128851--78128884 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
78128841 ATTCTTATAC
78128851 TTATATTTTTAAATTTT
1 TTATATTTTTAAATTTT
78128868 TTATA-TTTT-AATTTT
1 TTATATTTTTAAATTTT
78128883 TT
1 TT
78128885 TTTGCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 4 0.24
17 5 0.29
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATATTTTTAAATTTT
Found at i:78128902 original size:20 final size:20
Alignment explanation
Indices: 78128879--78128924 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
78128869 TATATTTTAA
78128879 TTTTTT-TTTGCTATTTCTAT
1 TTTTTTCTTTGCTATTTC-AT
* *
78128899 TTTTTTCTTTTCTCTTTCAT
1 TTTTTTCTTTGCTATTTCAT
78128919 TTTTTT
1 TTTTTT
78128925 ACTATTGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.07, C:0.13, G:0.02, T:0.78
Consensus pattern (20 bp):
TTTTTTCTTTGCTATTTCAT
Found at i:78128986 original size:10 final size:9
Alignment explanation
Indices: 78128971--78129031 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 9
78128961 TATCATTGAG
78128971 TTTATTATTT
1 TTTATT-TTT
78128981 TTTATTTTT
1 TTTATTTTT
* *
78128990 TATCTTTCTT
1 TTTATTT-TT
78129000 TTTAATTTTGT
1 TTT-ATTTT-T
* *
78129011 TTTAGTTGT
1 TTTATTTTT
78129020 TTTATTTTT
1 TTTATTTTT
78129029 TTT
1 TTT
78129032 TCTCTTCAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 7
0.73 0.15 0.13
Matches are distributed among these distances:
9 19 0.47
10 14 0.35
11 7 0.17
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.79
Consensus pattern (9 bp):
TTTATTTTT
Found at i:78130906 original size:30 final size:30
Alignment explanation
Indices: 78130870--78130927 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
78130860 CTGGGCATTT
* *
78130870 CCACACGGGCTGGCCACACGCCCATGTGAG
1 CCACACGGGCTAGCCACACACCCATGTGAG
78130900 CCACACGGGCTAGCCACACACCCATGTG
1 CCACACGGGCTAGCCACACACCCATGTG
78130928 CCAATCCGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.22, C:0.41, G:0.26, T:0.10
Consensus pattern (30 bp):
CCACACGGGCTAGCCACACACCCATGTGAG
Found at i:78135235 original size:59 final size:58
Alignment explanation
Indices: 78135164--78135279 Score: 187
Period size: 59 Copynumber: 2.0 Consensus size: 58
78135154 ATTTGAATGA
78135164 ATGATCATATTCTTATTTGAGTATAGACTCACCTAATATGAACTGCGATTGACAGGAAG
1 ATGATCATATTCTTATTTGAGTATAGACTCACCTAATATGAACTGCGA-TGACAGGAAG
* * * *
78135223 ATGATCATATTCTTGTTTGAGTATAGACTCACCTATTGTGAACTGTGATGACAGGAA
1 ATGATCATATTCTTATTTGAGTATAGACTCACCTAATATGAACTGCGATGACAGGAA
78135280 ACTTTGATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 9 0.17
59 44 0.83
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (58 bp):
ATGATCATATTCTTATTTGAGTATAGACTCACCTAATATGAACTGCGATGACAGGAAG
Found at i:78136718 original size:42 final size:42
Alignment explanation
Indices: 78136672--78136790 Score: 139
Period size: 42 Copynumber: 2.8 Consensus size: 42
78136662 TGGGGTTGAT
*
78136672 ATGAGATTTCGTGTAAGACCACGTCTGGGACATGGCATCGAA
1 ATGAGATTTCATGTAAGACCACGTCTGGGACATGGCATCGAA
* ** * * * *
78136714 ATGAGATTTCATATAAGACCATATTTGGGATATGGTATCGAT
1 ATGAGATTTCATGTAAGACCACGTCTGGGACATGGCATCGAA
* **
78136756 GTGAGATCCCATGTAAGACCACGTCTGGGACATGG
1 ATGAGATTTCATGTAAGACCACGTCTGGGACATGG
78136791 AATTGGAATA
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (42 bp):
ATGAGATTTCATGTAAGACCACGTCTGGGACATGGCATCGAA
Found at i:78138044 original size:27 final size:26
Alignment explanation
Indices: 78137996--78138055 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
78137986 GCGAGGCTGC
* *
78137996 CAGATATTGTAACGAGGTCACCAGATA
1 CAGATATTGTAACGAGGCCACCA-AAA
** *
78138023 CAGATATTGTGGCTAGGCCACCAAAA
1 CAGATATTGTAACGAGGCCACCAAAA
78138049 CAGATAT
1 CAGATAT
78138056 ATATATATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTAACGAGGCCACCAAAA
Found at i:78138068 original size:33 final size:32
Alignment explanation
Indices: 78138017--78138078 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
78138007 ACGAGGTCAC
* *
78138017 CAGATACAGATATTGTGGCTAGGCCACCAAAA
1 CAGATACAGATATTGTGGCGAAGCCACCAAAA
* *
78138049 CAGATATATATATATGTGGCGAAGCCACCA
1 CAGATACAGATAT-TGTGGCGAAGCCACCA
78138079 GATTGCAGCG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 11 0.44
33 14 0.56
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAAAA
Found at i:78138144 original size:27 final size:26
Alignment explanation
Indices: 78138096--78138147 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
78138086 GCGAGGCTGC
*
78138096 CAGATATTGTGACGAAGTCACCAAAA
1 CAGATATTGTGACGAAGACACCAAAA
* *
78138122 CAGATATATGTGGCGAGGACACCAAA
1 CAGATAT-TGTGACGAAGACACCAAA
78138148 TTGCAGCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGACACCAAAA
Found at i:78138808 original size:27 final size:27
Alignment explanation
Indices: 78138778--78138942 Score: 91
Period size: 27 Copynumber: 6.1 Consensus size: 27
78138768 CAAAATAGTT
*
78138778 ATTTTACCCTCCATGGGTAAATCGGTA
1 ATTTTACCCTCCAAGGGTAAATCGGTA
**
78138805 ATTTTACCC-CACAAGGGTATCTCGGTA
1 ATTTTACCCTC-CAAGGGTAAATCGGTA
* * * **
78138832 ATTCTACCCTACAGGGGTATTTCGGT-
1 ATTTTACCCTCCAAGGGTAAATCGGTA
* * ** *
78138858 ATTTCTATCCTACAAGGGTATTTCGATA
1 ATTT-TACCCTCCAAGGGTAAATCGGTA
* * * ** *
78138886 ATTCTATCCTACAAGGGTATTTCGATA
1 ATTTTACCCTCCAAGGGTAAATCGGTA
* * **
78138913 ATTCTACCCTACAAGGGTATTTCGGTA
1 ATTTTACCCTCCAAGGGTAAATCGGTA
78138940 ATT
1 ATT
78138943 CTACAACTTA
Statistics
Matches: 120, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
26 4 0.03
27 113 0.94
28 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
ATTTTACCCTCCAAGGGTAAATCGGTA
Found at i:78138943 original size:27 final size:27
Alignment explanation
Indices: 78138799--78138946 Score: 215
Period size: 27 Copynumber: 5.5 Consensus size: 27
78138789 CATGGGTAAA
* * *
78138799 TCGGTAATTTTACCCCACAAGGGTATC
1 TCGGTAATTCTACCCTACAAGGGTATT
*
78138826 TCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAAGGGTATT
* *
78138853 TCGGTATTTCTATCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAAGGGTATT
* *
78138880 TCGATAATTCTATCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAAGGGTATT
*
78138907 TCGATAATTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAAGGGTATT
78138934 TCGGTAATTCTAC
1 TCGGTAATTCTAC
78138947 AACTTATCCA
Statistics
Matches: 110, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 110 1.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (27 bp):
TCGGTAATTCTACCCTACAAGGGTATT
Found at i:78152653 original size:19 final size:21
Alignment explanation
Indices: 78152631--78152669 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
78152621 CTGCTAAACC
78152631 ATTTCA-TTGCAT-TTAGTTT
1 ATTTCATTTGCATATTAGTTT
78152650 ATTTCATTTGCATATTAGTT
1 ATTTCATTTGCATATTAGTT
78152670 ATTAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 6 0.33
21 6 0.33
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (21 bp):
ATTTCATTTGCATATTAGTTT
Found at i:78156727 original size:25 final size:25
Alignment explanation
Indices: 78156698--78156775 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
78156688 ATGCTCTCAT
*
78156698 GAGCTATGAATCAGGAAGCTCATAC
1 GAGCTATAAATCAGGAAGCTCATAC
* *
78156723 AAGCTACAAATCAGGAAG-TCAT-C
1 GAGCTATAAATCAGGAAGCTCATAC
* *
78156746 GAGCTGTAAATCGGGAAGCTCATAC
1 GAGCTATAAATCAGGAAGCTCATAC
78156771 GAGCT
1 GAGCT
78156776 GTCGTGTGTC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
23 15 0.34
24 8 0.18
25 21 0.48
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (25 bp):
GAGCTATAAATCAGGAAGCTCATAC
Found at i:78158278 original size:21 final size:21
Alignment explanation
Indices: 78158254--78158309 Score: 94
Period size: 21 Copynumber: 2.6 Consensus size: 21
78158244 ATAAATATTC
78158254 TATTAATTTAATAAGATTTAA
1 TATTAATTTAATAAGATTTAA
*
78158275 TATTAATTTAATAATATTTAA
1 TATTAATTTAATAAGATTTAA
78158296 TATTAAATTTAATA
1 TATT-AATTTAATA
78158310 TTAAAGTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 24 0.73
22 9 0.27
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TATTAATTTAATAAGATTTAA
Found at i:78158307 original size:12 final size:12
Alignment explanation
Indices: 78158269--78158314 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
78158259 ATTTAATAAG
78158269 ATTTAATATT-A
1 ATTTAATATTAA
*
78158280 ATTTAATA--AT
1 ATTTAATATTAA
78158290 ATTTAATATTAA
1 ATTTAATATTAA
78158302 ATTTAATATTAA
1 ATTTAATATTAA
78158314 A
1 A
78158315 GTAATTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 8 0.27
11 8 0.27
12 14 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:78161614 original size:141 final size:139
Alignment explanation
Indices: 78161437--78161723 Score: 497
Period size: 141 Copynumber: 2.1 Consensus size: 139
78161427 TAAAAAAAGG
*
78161437 AATTATA-TTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACTGAAATTAATTA
1 AATTATATTTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTA
78161501 AAATAATTGTTTATATTAATAAATTCTA-TAAAATATATATACAATTAATATTTTGTATGAATCA
66 AAATAATTGTTTATATTAATAAATTC-AGT-AAA-ATATATACAATTAATATTTTGTATGAATCA
78161565 AATTCATATATT
128 AATTCATATATT
* *
78161577 AATTATATTTTTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTA
1 AATTATATTTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTA
*
78161642 ATATAATTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
66 AAATAATTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
78161707 TCATATATT
131 TCATATATT
78161716 AATTATAT
1 AATTATAT
78161724 CTATGTTCTC
Statistics
Matches: 141, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
139 50 0.35
140 11 0.08
141 80 0.57
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (139 bp):
AATTATATTTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTA
AAATAATTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
TCATATATT
Found at i:78164974 original size:26 final size:26
Alignment explanation
Indices: 78164945--78164997 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
78164935 TTTTGAGAAG
78164945 ATAGTTCTGAAAAAATAGTGTCAAAA
1 ATAGTTCTGAAAAAATAGTGTCAAAA
*
78164971 ATAGTTCTGAAAAAATATTGTCAAAA
1 ATAGTTCTGAAAAAATAGTGTCAAAA
78164997 A
1 A
78164998 CGCTTCAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (26 bp):
ATAGTTCTGAAAAAATAGTGTCAAAA
Found at i:78165207 original size:125 final size:124
Alignment explanation
Indices: 78164974--78165322 Score: 509
Period size: 125 Copynumber: 2.8 Consensus size: 124
78164964 GTCAAAAATA
* * *
78164974 GTTCTGAAAAAATATTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTAAAAAA
1 GTTCTGAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTATCAGCAAAAGTACT-AAAAA
* * * *
78165039 AGCTCCCACATGGACGCTCTTTTTCTATAGTAGTTTCTAAAAAATAATTTTGAGAAGACG
65 AGCTCCCACATGGACGCTCTTTTTCTACAGTAGTCTCTAAAAAAAAAATTTGAGAAGACG
*
78165099 GTTCAGAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTATCAGCAAAAGTACTGAAAAA
1 GTTCTGAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTATCAGCAAAAGTACT-AAAAA
* * * *
78165164 AGCTCCCACTTGGACGCACTTTTTCTACAATAGTCTCTGAAAAAAAAATTTGAGAAGACG
65 AGCTCCCACATGGACGCTCTTTTTCTACAGTAGTCTCTAAAAAAAAAATTTGAGAAGACG
* **
78165224 ATTCTGAAAAAATAGTGTCAAAAATGCTTCAAGCAATATGCACTATCAGCAAAAAGTACTAAAAA
1 GTTCTGAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTATCAGC-AAAAGTACTAAAAA
* * *
78165289 AGCTCTCACATGGACGTTCTGTTTCTACAGTAGT
65 AGCTCCCACATGGACGCTCTTTTTCTACAGTAGT
78165323 TCCTGCTTAG
Statistics
Matches: 200, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
125 191 0.95
126 9 0.05
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.26
Consensus pattern (124 bp):
GTTCTGAAAAAATAGTGTCAAAAATGCTTCAAGCAGGATGCACTATCAGCAAAAGTACTAAAAAA
GCTCCCACATGGACGCTCTTTTTCTACAGTAGTCTCTAAAAAAAAAATTTGAGAAGACG
Found at i:78167706 original size:19 final size:19
Alignment explanation
Indices: 78167671--78167708 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
78167661 TAACCTTGGT
*
78167671 TGTTTGGGAGACATATTTC
1 TGTTTGGCAGACATATTTC
78167690 TGTTTGGCA-ACACTATTTC
1 TGTTTGGCAGACA-TATTTC
78167709 CAAAGCAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (19 bp):
TGTTTGGCAGACATATTTC
Found at i:78168856 original size:18 final size:18
Alignment explanation
Indices: 78168833--78168870 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
78168823 GGAAAAAGAA
*
78168833 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
78168851 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
78168869 AC
1 AC
78168871 TCACATGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:78176722 original size:79 final size:80
Alignment explanation
Indices: 78176579--78176786 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
78176569 ACCTTCGGAG
* * ** * * * *
78176579 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
*
78176643 CCAAGGCCTACGGGA
66 CAAAGGCCTACGGGA
* * * *
78176658 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * *
78176720 CACAAATGCCTTCGGGT
64 CACAAAGGCCTACGGGA
* * * *
78176737 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
78176787 TTATAATTTC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CAAAGGCCTACGGGA
Found at i:78176726 original size:40 final size:40
Alignment explanation
Indices: 78176679--78176786 Score: 144
Period size: 40 Copynumber: 2.7 Consensus size: 40
78176669 TATCACGATT
** *
78176679 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* *
78176719 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
78176759 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
78176787 TTATAATTTC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:78184290 original size:79 final size:80
Alignment explanation
Indices: 78184147--78184354 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
78184137 ACCTTCGGAG
* * ** * * * *
78184147 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
78184211 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
78184226 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * *
78184288 CACGAATGCCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
78184305 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
78184355 TTATAATTTC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:78184299 original size:40 final size:40
Alignment explanation
Indices: 78184247--78184354 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
78184237 TATCACGATT
** *
78184247 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
78184287 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
78184327 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
78184355 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:78188112 original size:10 final size:10
Alignment explanation
Indices: 78188099--78188134 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
78188089 ATTTTTATAT
*
78188099 TTTTTAAAAG
1 TTTTAAAAAG
78188109 TTTTAAAAAG
1 TTTTAAAAAG
78188119 TTTTAAAAAG
1 TTTTAAAAAG
*
78188129 CTTTAA
1 TTTTAA
78188135 TATATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (10 bp):
TTTTAAAAAG
Found at i:78188171 original size:22 final size:23
Alignment explanation
Indices: 78188137--78188184 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
78188127 AGCTTTAATA
*
78188137 TATTTTTAATTTTTT-TAAATTT
1 TATTTATAATTTTTTGTAAATTT
* *
78188159 TATTTATATTTTTTTGTAATTTT
1 TATTTATAATTTTTTGTAAATTT
78188182 TAT
1 TAT
78188185 ATTTAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (23 bp):
TATTTATAATTTTTTGTAAATTT
Found at i:78188180 original size:11 final size:10
Alignment explanation
Indices: 78188139--78188182 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
78188129 CTTTAATATA
78188139 TTTTTAATTT
1 TTTTTAATTT
*
78188149 TTTTAAATTT
1 TTTTTAATTT
*
78188159 TATTTATATTT
1 TTTTTA-ATTT
78188170 TTTTGTAATTT
1 TTTT-TAATTT
78188181 TT
1 TT
78188183 ATATTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
10 13 0.46
11 13 0.46
12 2 0.07
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (10 bp):
TTTTTAATTT
Found at i:78192508 original size:21 final size:21
Alignment explanation
Indices: 78192475--78192517 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
78192465 CTCAACTTAT
78192475 AGTAAATAGAAATTACA-AATA
1 AGTAAATAGAAATT-CATAATA
78192496 AGTAAAT-GAAAATTCATAATA
1 AGTAAATAG-AAATTCATAATA
78192517 A
1 A
78192518 CCAATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.60, C:0.05, G:0.09, T:0.26
Consensus pattern (21 bp):
AGTAAATAGAAATTCATAATA
Found at i:78199762 original size:195 final size:197
Alignment explanation
Indices: 78199459--78199843 Score: 528
Period size: 196 Copynumber: 2.0 Consensus size: 197
78199449 TGTTGAGGTA
* *
78199459 TATGTAAAAAACTAAAACATAGAGATTAAATTTCAAAATTGAGCATAACATAGGGACCAAAATTG
1 TATGTAAAAAACTAAAACATAGAGATTAAATTTCAAAATTGAACATAACATAAGGACCAAAATTG
* *
78199524 AAATTTAACCATTGTTATATAATCCGAAAGAAAAGATAAAAGGTTGTGTATTTGGA-ATGTGTAC
66 AAATTTAACCATTATTATATAATCCGAAAGAAAAGATAAAAGGTTGTGTATTTGGACATGTGCAC
* *
78199588 GTCAACATTTTAATTACAATAATGTATTTATACTAACAATGACATTATAAAAGTTAAGGTACCGA
131 GTCAACATTTTAACTACAATAATGTATTTAGACTAACAATGACATTATAAAAGTTAAGGTACCGA
78199653 AT
196 AT
* * ** * *
78199655 TATGTCAAAAATTAAAGTATAGAGATTAAATTTCAAATTTGAACATAATATAAGGA-CAAAATTG
1 TATGTAAAAAACTAAAACATAGAGATTAAATTTCAAAATTGAACATAACATAAGGACCAAAATTG
* * *
78199719 GAATTTGACCATTATTGTATAATCTC-AAA-AATTAAG-TAAAAGGTTGTGTATTTGGACATGTG
66 AAATTTAACCATTATTATATAATC-CGAAAGAA--AAGATAAAAGGTTGTGTATTTGGACATGTG
* * * * *
78199781 CACGTCAACATTTTAGCTAGAATGATGTATTTAGATTAACAATGACATTATAAAAGTTGAGGT
128 CACGTCAACATTTTAACTACAATAATGTATTTAGACTAACAATGACATTATAAAAGTTAAGGT
78199844 GCCTGATGTT
Statistics
Matches: 165, Mismatches: 20, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
194 2 0.01
195 51 0.31
196 112 0.68
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.32
Consensus pattern (197 bp):
TATGTAAAAAACTAAAACATAGAGATTAAATTTCAAAATTGAACATAACATAAGGACCAAAATTG
AAATTTAACCATTATTATATAATCCGAAAGAAAAGATAAAAGGTTGTGTATTTGGACATGTGCAC
GTCAACATTTTAACTACAATAATGTATTTAGACTAACAATGACATTATAAAAGTTAAGGTACCGA
AT
Found at i:78201534 original size:43 final size:42
Alignment explanation
Indices: 78201487--78201642 Score: 170
Period size: 43 Copynumber: 3.6 Consensus size: 42
78201477 TATCGAGATG
*
78201487 TGATTACATGTAAGACCATGTCTGGGACATTAGCATTGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACATT-GCATCGTATTA
** *
78201530 TGATTATGTGTAAGACCATGTCTGGGATATTGGCATCGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACATT-GCATCGTATTA
* * * * *
78201573 TGATTTCATGTAAGACCCTGTCTGAGACAGTGACATCG-ATGTG
1 TGATTACATGTAAGACCATGTCTGGGACATTG-CATCGTAT-TA
* *
78201616 TGATAACATGTAAGACCATATCTGGGA
1 TGATTACATGTAAGACCATGTCTGGGA
78201643 TATGGCATTG
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
42 3 0.03
43 90 0.97
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.33
Consensus pattern (42 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGCATCGTATTA
Found at i:78203252 original size:17 final size:17
Alignment explanation
Indices: 78203217--78203268 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 17
78203207 AAAAGACAAT
78203217 AATAATAATATATTAATAAA
1 AATAATAATA-A-T-ATAAA
78203237 AATGAA-AATAATATAAA
1 AAT-AATAATAATATAAA
78203254 AATAATAATAATATA
1 AATAATAATAATATA
78203269 GGGAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.07
17 17 0.57
18 1 0.03
19 1 0.03
20 7 0.23
21 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (17 bp):
AATAATAATAATATAAA
Found at i:78203421 original size:3 final size:3
Alignment explanation
Indices: 78203413--78203564 Score: 84
Period size: 3 Copynumber: 51.0 Consensus size: 3
78203403 TAGTACCATG
* * * *
78203413 ATA ATA ATA ACA ATA ATA ATA ATA A-A ATA ATA AAA ATA ACA AT- ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
78203459 TTA TTA ATA ATA ATA ATAA ATAA ATA ATG GTA ATAA ATA TATA A-A ATA
1 ATA ATA ATA ATA ATA AT-A AT-A ATA ATA ATA AT-A ATA -ATA ATA ATA
* ** *
78203507 ATA GTA CCA GTA ATA A-A ATA A-A TATA AT- ATA ATA A-A TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -ATA ATA
*
78203550 ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA
78203565 TTTAAAAATA
Statistics
Matches: 116, Mismatches: 21, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
2 12 0.10
3 89 0.77
4 15 0.13
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:78203565 original size:20 final size:20
Alignment explanation
Indices: 78203416--78203555 Score: 85
Period size: 20 Copynumber: 7.0 Consensus size: 20
78203406 TACCATGATA
*
78203416 ATAATAACAATAATAATAAT
1 ATAATAATAATAATAATAAT
* * *
78203436 AAAATAATAAAAATAACAAT
1 ATAATAATAATAATAATAAT
** *
78203456 ATGTTATTAATAATAATAAT
1 ATAATAATAATAATAATAAT
**
78203476 A-AATAAATAATGGTAATAA-
1 ATAAT-AATAATAATAATAAT
* **
78203495 ATATATAA-AATAATAGTACC
1 ATA-ATAATAATAATAATAAT
78203515 AGTAATAA-AATAA-ATATAAT
1 A-TAATAATAATAATA-ATAAT
78203535 ATAATAA-ATATAATAATAAT
1 ATAATAATA-ATAATAATAAT
78203555 A
1 A
78203556 ATAACAATAT
Statistics
Matches: 90, Mismatches: 22, Indels: 16
0.70 0.17 0.12
Matches are distributed among these distances:
19 17 0.19
20 68 0.76
21 5 0.06
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.31
Consensus pattern (20 bp):
ATAATAATAATAATAATAAT
Found at i:78203944 original size:17 final size:17
Alignment explanation
Indices: 78203922--78203960 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
78203912 CATGGTGGCA
78203922 AGTGGGGTAATAGAGTT
1 AGTGGGGTAATAGAGTT
* *
78203939 AGTGGGGTGATGGAGTT
1 AGTGGGGTAATAGAGTT
78203956 AGTGG
1 AGTGG
78203961 CAAGTAGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.49, T:0.28
Consensus pattern (17 bp):
AGTGGGGTAATAGAGTT
Found at i:78204460 original size:84 final size:84
Alignment explanation
Indices: 78204332--78204910 Score: 903
Period size: 84 Copynumber: 6.9 Consensus size: 84
78204322 TTAATCTGCT
* *
78204332 CTACTGTTTAGGGAGATAAGATCTGTAATTTT-TAGGCTGTTACCCTACTGCTTAGGGGGTTAAG
1 CTACTGTTTAGGG-G---AGATCTGT-ATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
* *
78204396 GCTTGCTATCTTCGATATGCTCCA
61 GCTTGCTGTCTTCGATCTGCTCCA
* *
78204420 CTACTATTTAGGGAAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
1 CTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
78204485 CTGTCTTCGATCTGCTCCA
66 CTGTCTTCGATCTGCTCCA
** *
78204504 CTACTGTTTA-GGGAGATCTGTATTTTTTAGCTTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
1 CTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
78204568 CTGTCTTCGATCTGCTCCA
66 CTGTCTTCGATCTGCTCCA
*
78204587 CTACTGTTTAGGGGAGATCTGTATTTTCCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
1 CTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
78204652 CTGTCTTCGATCTGCTCCA
66 CTGTCTTCGATCTGCTCCA
* * * * * *
78204671 GTACTATTTAGGGTATATCTATATTTTCCAGCCTGTTACCCTACTGCTTA-GGGGTTAAGGCTTA
1 CTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
78204735 CTGTCTTCGATCTGCTCCA
66 CTGTCTTCGATCTGCTCCA
** *
78204754 CTACTGTTTAGGGGAGATCTGTATTTTTTAGCTTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
1 CTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
*
78204819 CTGTCTTCGATCTGTTCCA
66 CTGTCTTCGATCTGCTCCA
*
78204838 CTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCG
1 CTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
78204903 CTGTCTTC
66 CTGTCTTC
78204911 AGCCTGCTCT
Statistics
Matches: 452, Mismatches: 36, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
83 158 0.35
84 282 0.62
88 12 0.03
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.37
Consensus pattern (84 bp):
CTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTG
CTGTCTTCGATCTGCTCCA
Found at i:78204542 original size:167 final size:167
Alignment explanation
Indices: 78204350--78204910 Score: 901
Period size: 167 Copynumber: 3.4 Consensus size: 167
78204340 TAGGGAGATA
* * * *
78204350 AGATCTGTAATTTT-TAGGCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTATCTTCGATAT
1 AGATCTGT-ATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCT
* *
78204414 GCTCCACTACTATTTAGGGAAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAA
65 GCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAA
78204479 GGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGG
130 GGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGG
** *
78204517 AGATCTGTATTTTTTAGCTTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
1 AGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
*
78204582 CTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAACCTGTTACCCTACTGCTTAGGGGGTTAAG
66 CTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
* *
78204647 GCTTGCTGTCTTCGATCTGCTCCAGTACTATTTAGGG
131 GCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGG
* * *
78204684 TATATCTATATTTTCCAGCCTGTTACCCTACTGCTTA-GGGGTTAAGGCTTACTGTCTTCGATCT
1 -AGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCT
** *
78204748 GCTCCACTACTGTTTAGGGGAGATCTGTATTTTTTAGCTTGTTACCCTACTGCTTAGGGGGTTAA
65 GCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAA
*
78204813 GGCTTGCTGTCTTCGATCTGTTCCACTACTGTTTAGGGG
130 GGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTA-GGG
*
78204852 AGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGCTGTCTTC
1 AGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTC
78204911 AGCCTGCTCT
Statistics
Matches: 364, Mismatches: 26, Indels: 7
0.92 0.07 0.02
Matches are distributed among these distances:
166 5 0.01
167 305 0.84
168 54 0.15
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (167 bp):
AGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTG
CTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
GCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGG
Found at i:78204793 original size:251 final size:251
Alignment explanation
Indices: 78204368--78204910 Score: 980
Period size: 251 Copynumber: 2.2 Consensus size: 251
78204358 AATTTTTAGG
*
78204368 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTATCTTCGATATGCTCCACTACTATTTAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATATGCTCCACTACTATTTAGGG
* *
78204433 AAGATCTGTATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCT
66 AAGATCTATATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTACTGTCTTCGATCT
78204498 GCTCCACTACTGTTTAGGGAGATCTGTATTTTTTAGCTTGTTACCCTACTGCTTAGGGGGTTAAG
131 GCTCCACTACTGTTTAGGGAGATCTGTATTTTTTAGCTTGTTACCCTACTGCTTAGGGGGTTAAG
78204563 GCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAAC
196 GCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAAC
* *
78204619 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATCTGCTCCAGTACTATTTAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATATGCTCCACTACTATTTAGGG
* *
78204684 TATATCTATATTTTCCAGCCTGTTACCCTACTGCTTA-GGGGTTAAGGCTTACTGTCTTCGATCT
66 AAGATCTATATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTACTGTCTTCGATCT
78204748 GCTCCACTACTGTTTAGGGGAGATCTGTATTTTTTAGCTTGTTACCCTACTGCTTAGGGGGTTAA
131 GCTCCACTACTGTTTA-GGGAGATCTGTATTTTTTAGCTTGTTACCCTACTGCTTAGGGGGTTAA
* *
78204813 GGCTTGCTGTCTTCGATCTGTTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAGC
195 GGCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAAC
*
78204870 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGCTGTCTTC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTC
78204911 AGCCTGCTCT
Statistics
Matches: 281, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
250 42 0.15
251 239 0.85
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.37
Consensus pattern (251 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGCTGTCTTCGATATGCTCCACTACTATTTAGGG
AAGATCTATATTTTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTACTGTCTTCGATCT
GCTCCACTACTGTTTAGGGAGATCTGTATTTTTTAGCTTGTTACCCTACTGCTTAGGGGGTTAAG
GCTTGCTGTCTTCGATCTGCTCCACTACTGTTTAGGGGAGATCTGTATTTTCCAAC
Found at i:78204805 original size:40 final size:40
Alignment explanation
Indices: 78204754--78204891 Score: 100
Period size: 40 Copynumber: 3.4 Consensus size: 40
78204744 ATCTGCTCCA
*
78204754 CTACTGTTTAGGGGAGATCTGTATTTTTTAGCTTGTTACC
1 CTACTGCTTAGGGGAGATCTGTATTTTTTAGCTTGTTACC
* ** ** * *
78204794 CTACTGCTTAGGGG-GTTAAGGCTTGCTGTCTTCGATCTGTT-CC
1 CTACTGCTTAGGGGAGATCTGTATT--T-T-TTAGCT-TGTTACC
* ** *
78204837 ACTACTGTTTAGGGGAGATCTGTATTTTCCAGCCTGTTACC
1 -CTACTGCTTAGGGGAGATCTGTATTTTTTAGCTTGTTACC
78204878 CTACTGCTTAGGGG
1 CTACTGCTTAGGGG
78204892 GTTAAGGCTC
Statistics
Matches: 70, Mismatches: 20, Indels: 16
0.66 0.19 0.15
Matches are distributed among these distances:
39 5 0.07
40 30 0.43
41 4 0.06
42 2 0.03
43 7 0.10
44 17 0.24
45 5 0.07
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.38
Consensus pattern (40 bp):
CTACTGCTTAGGGGAGATCTGTATTTTTTAGCTTGTTACC
Found at i:78205183 original size:45 final size:45
Alignment explanation
Indices: 78205086--78205175 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 45
78205076 TGGTGGCTAA
* ** *
78205086 AATCTACTCCATAGCCAATACATGGAGATAAGACTCGCCATTTTT
1 AATCTGCTCCATAGCCAATACATGGAGATAAGACTCGAAATCTTT
* *
78205131 AATCTGCTCCATAGTCGATACATGGAGATAAGA-TCTGAAATCTTT
1 AATCTGCTCCATAGCCAATACATGGAGATAAGACTC-GAAATCTTT
78205176 GGTCTGCTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 2 0.05
45 36 0.95
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (45 bp):
AATCTGCTCCATAGCCAATACATGGAGATAAGACTCGAAATCTTT
Found at i:78205188 original size:176 final size:176
Alignment explanation
Indices: 78204956--78205738 Score: 1253
Period size: 176 Copynumber: 4.4 Consensus size: 176
78204946 GGTGAATAAA
*
78204956 ATCTACTCCATAGCCGATACATGGAGATAAGATCTGAAATCTTCGGTCTGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGAAATCTTCGGTCTGCTTCCTGCAACTTCA
*
78205021 GAAAGATAAGACATGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGCTGGTGGCTAA
66 GAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGCTGGTGGCTAA
* *
78205086 AATCTACTCCATAGCCAATACATGGAGATAAGACTCGCCATTTTTA
131 AATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATTTTTG
* * *
78205132 ATCTGCTCCATAGTCGATACATGGAGATAAGATCTGAAATCTTTGGTCTGCTTCCTGCAACTTTA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGAAATCTTCGGTCTGCTTCCTGCAACTTCA
* *
78205197 GAAAGATAAGACTTGTATCTTCAACCTGCTCTCTACAACTTCAGAGAGATAAGGCTGGTGGCTAA
66 GAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGCTGGTGGCTAA
78205262 AATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATTTTTG
131 AATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATTTTTG
* ** *
78205308 ATCTGCTCCACAGCCGATACATGGAGATAAGAAATGAAATCTTCGGTCTGCTTCCTACAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGAAATCTTCGGTCTGCTTCCTGCAACTTCA
* * * * *
78205373 GAAAGATAAGACCTATATCTTCAACCTACTCTCTGCAACTTCAGAGAAATAAGGTTGATGGCTAA
66 GAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGCTGGTGGCTAA
*
78205438 AATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTTG
131 AATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATTTTTG
* * *
78205484 ATCTACTCCATAGCCGATACATGGAGATAAGATCTAAAATCTTCGGTCCGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGAAATCTTCGGTCTGCTTCCTGCAACTTCA
* *
78205549 GAAAGATAAGACCTGCATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGCTGGTGACTAA
66 GAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGCTGGTGGCTAA
* * *
78205614 AATCTGCTCCATAGCCGATACATGGAGATAAGACTCTCTATTTTTTTG
131 AATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCA--TTTTTG
* * *
78205662 ATCTGCTCTATAGCCGATACATGGAGATAAGATCTGTAAAT-TTCAGTCTGCTTCCTACAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTG-AAATCTTCGGTCTGCTTCCTGCAACTTC
*
78205726 AGGAAGATAAGAC
65 AGAAAGATAAGAC
78205739 TAGGGGCTAA
Statistics
Matches: 558, Mismatches: 46, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
176 483 0.87
178 71 0.13
179 4 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (176 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGAAATCTTCGGTCTGCTTCCTGCAACTTCA
GAAAGATAAGACCTGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGCTGGTGGCTAA
AATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATTTTTG
Found at i:78205358 original size:45 final size:45
Alignment explanation
Indices: 78205263--78205359 Score: 106
Period size: 45 Copynumber: 2.2 Consensus size: 45
78205253 GGTGGCTAAA
* * ** * *
78205263 ATCTGCTCCATAGCCAATACATGGAGATAAGACTCGCCATTTTTG
1 ATCTGCTCCACAGCCAATACATGGAGATAAGAATCGAAATCTTCG
*
78205308 ATCTGCTCCACAGCCGATACATGGAGATAAGAAAT-GAAATCTTCG
1 ATCTGCTCCACAGCCAATACATGGAGATAAG-AATCGAAATCTTCG
*
78205353 GTCTGCT
1 ATCTGCT
78205360 TCCTACAACT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
45 41 0.95
46 2 0.05
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (45 bp):
ATCTGCTCCACAGCCAATACATGGAGATAAGAATCGAAATCTTCG
Found at i:78205847 original size:133 final size:133
Alignment explanation
Indices: 78205584--78206006 Score: 609
Period size: 133 Copynumber: 3.2 Consensus size: 133
78205574 CTGCTCTCTG
* * *
78205584 CAACTTCA-GAGAGATAAGGCT-GGTGACTAAAATCTGCTCCATAGCCGATACATGGAGATAAGA
1 CAACTTCAGGA-AGATAAGACTAGG-GGCTAAAATCTGCTCCATAGTCGATACATGGAGATAAGA
* * * ** *
78205647 CTCTCTATTTTTTTGATCTGCTCTATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTG
64 CTCGCCA--TCTTTGATCTATTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTG
78205712 CTTCCTA
127 CTTCCTA
* **
78205719 CAACTTCAGGAAGATAAGACTAGGGGCTAAAATCTCCTATATAGTCGATACATGGAGATAAGACT
1 CAACTTCAGGAAGATAAGACTAGGGGCTAAAATCTGCTCCATAGTCGATACATGGAGATAAGACT
*
78205784 CGCCATCTTTGATCTATTCCATAGCCGATACATGGAGATAAGATTTGTAAATTTCAGTCTGCTTC
66 CGCCATCTTTGATCTATTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTC
78205849 CTA
131 CTA
78205852 CAACTTCAGGAAGATAAGACTAGGGGCTAAAATCTGCTCCATAGTCGATACATGGAGATAAGACT
1 CAACTTCAGGAAGATAAGACTAGGGGCTAAAATCTGCTCCATAGTCGATACATGGAGATAAGACT
* * *
78205917 CGCCATCTTTGAT-TTTCTCCATAGCCGATACATTGAGATAAGATCTGTAAATTTTTAGTCTGCT
66 CGCCATCTTTGATCTAT-TCCATAGCCGATACATGGAGATAAGATCTGTAAA-TTTCAGTCTGCT
*
78205981 TCCTG
129 TCCTA
*
78205986 CAACTTCAGAAAGATAAGACT
1 CAACTTCAGGAAGATAAGACT
78206007 TGTGAATTCA
Statistics
Matches: 262, Mismatches: 22, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
132 2 0.01
133 165 0.63
134 35 0.13
135 56 0.21
136 4 0.02
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (133 bp):
CAACTTCAGGAAGATAAGACTAGGGGCTAAAATCTGCTCCATAGTCGATACATGGAGATAAGACT
CGCCATCTTTGATCTATTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTCAGTCTGCTTC
CTA
Found at i:78206003 original size:311 final size:308
Alignment explanation
Indices: 78205229--78206005 Score: 765
Period size: 311 Copynumber: 2.5 Consensus size: 308
78205219 AACCTGCTCT
*
78205229 CTACAACTTCA-GAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCAATACATGGAGATAA
1 CTACAACTTCAGGA-AGATAAGACTGG-GGCTAAAATCTGCTCCATAG-CAATACATGGAGATAA
* * ** * **
78205293 GACTCGCCATTTTTGATCTGCTCCACAGCCGATACATGGAGATAAGAAATG-AAATCTTCGGTCT
63 GACTCGCCATCTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTTAGTCT
* * *
78205357 GCTTCCTACAACTTCAGAAAGATAAGACCTATATCTTCAACCTACTCTCTGCAACTTCAGAGAAA
128 GCTTCCTGCAACTTCAGAAAGATAAGACCTAAATCTTCAACCTACTCTCTACAACTTCAGAGAAA
* * * * * *
78205422 TAAGGTTGATGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTTGATC
193 TAAGCTAGAGGGCTAAAATCTCCTACATAGCCGATACATGGAGATAAGACTCGCCATCTTTGATC
*
78205487 TACTCCATAGCCGATACATGGAGATAAGATCTAAAATCTTCGGTCCGCTTC
258 TACTCCATAGCCGATACATGGAGATAAGATCTAAAATCTTCAGTCCGCTTC
* * *** ** * *
78205538 CTGCAACTTCAGAAAGATAAGACCTGCATCTTCAACCTGCTCTC-T-GCAACTTCA-GAGAGATA
1 CTACAACTTCAGGAAGATAAGA-CTGGGGCTAAAATCTGCTC-CATAGCAA-TACATG-GAGATA
* * ** *** * * *
78205600 AGGCTGGTGA-CTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCTCT-ATTTTTTTGA
62 AGACTCGCCATCTTTGATCTGCTCCATAGCCGATACATGGAGATAAGA-TCTGTAAATTTTTAG-
* * * * * ** *
78205663 TCTGC-TCTATAGCCGA-TACATG-GAGATAAGATCTGTAAAT-TTCAGTCTGCT-TCCTACAAC
125 TCTGCTTC-CT-G-CAACTTCA-GAAAGATAAGA-C-CTAAATCTTCAACCTACTCT-CTACAAC
* *
78205723 TTCAG-GAAGATAAGACTAG-GGGCTAAAATCTCCTATATAGTCGATACATGGAGATAAGACTCG
183 TTCAGAGAA-ATAAG-CTAGAGGGCTAAAATCTCCTACATAGCCGATACATGGAGATAAGACTCG
* * * *
78205786 CCATCTTTGATCTATTCCATAGCCGATACATGGAGATAAGATTTGTAAAT-TTCAGTCTGCTTC
246 CCATCTTTGATCTACTCCATAGCCGATACATGGAGATAAGATCT-AAAATCTTCAGTCCGCTTC
*
78205849 CTACAACTTCAGGAAGATAAGACTAGGGGCTAAAATCTGCTCCATAGTCGATACATGGAGATAAG
1 CTACAACTTCAGGAAGATAAGACT-GGGGCTAAAATCTGCTCCATAG-CAATACATGGAGATAAG
* * *
78205914 ACTCGCCATCTTTGATTTTCTCCATAGCCGATACATTGAGATAAGATCTGTAAATTTTTAGTCTG
64 ACTCGCCATCTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTTAGTCTG
78205979 CTTCCTGCAACTTCAGAAAGATAAGAC
129 CTTCCTGCAACTTCAGAAAGATAAGAC
78206006 TTGTGAATTC
Statistics
Matches: 363, Mismatches: 77, Indels: 55
0.73 0.16 0.11
Matches are distributed among these distances:
307 36 0.10
308 24 0.07
309 34 0.09
310 27 0.07
311 163 0.45
312 36 0.10
313 43 0.12
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (308 bp):
CTACAACTTCAGGAAGATAAGACTGGGGCTAAAATCTGCTCCATAGCAATACATGGAGATAAGAC
TCGCCATCTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAAATTTTTAGTCTGCT
TCCTGCAACTTCAGAAAGATAAGACCTAAATCTTCAACCTACTCTCTACAACTTCAGAGAAATAA
GCTAGAGGGCTAAAATCTCCTACATAGCCGATACATGGAGATAAGACTCGCCATCTTTGATCTAC
TCCATAGCCGATACATGGAGATAAGATCTAAAATCTTCAGTCCGCTTC
Found at i:78209463 original size:40 final size:40
Alignment explanation
Indices: 78209408--78209588 Score: 249
Period size: 40 Copynumber: 4.5 Consensus size: 40
78209398 TATTCGGATG
* *
78209408 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
78209448 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * **
78209488 ATATCCGGGCTAAGTCCTGAAGCCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
78209528 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
78209568 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
78209589 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 12 0.10
40 110 0.89
41 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:78211159 original size:15 final size:14
Alignment explanation
Indices: 78211139--78211181 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
78211129 CTACAATCTC
78211139 TTTTTGTTGTTTTTG
1 TTTTTGTT-TTTTTG
**
78211154 TTTTTGTTTTCTTCA
1 TTTTTGTTTT-TTTG
78211169 TTTTTGTTTTTTT
1 TTTTTGTTTTTTT
78211182 TGCCGCATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 4 0.17
15 20 0.83
ACGTcount: A:0.02, C:0.05, G:0.12, T:0.81
Consensus pattern (14 bp):
TTTTTGTTTTTTTG
Found at i:78211190 original size:20 final size:21
Alignment explanation
Indices: 78211148--78211191 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
78211138 CTTTTTGTTG
* **
78211148 TTTTTGTTTTTGTTTTCTTCA
1 TTTTTGTTTTTGTTTGCCGCA
78211169 TTTTTGTTTTT-TTTGCCGCA
1 TTTTTGTTTTTGTTTGCCGCA
78211189 TTT
1 TTT
78211192 GCTGTATTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.05, C:0.11, G:0.11, T:0.73
Consensus pattern (21 bp):
TTTTTGTTTTTGTTTGCCGCA
Found at i:78216356 original size:17 final size:17
Alignment explanation
Indices: 78216336--78216372 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
78216326 CAATATATTA
78216336 ATAAAAATGAA-AATAAT
1 ATAAAAAT-AATAATAAT
78216353 ATAAAAATAATAATAAT
1 ATAAAAATAATAATAAT
78216370 ATA
1 ATA
78216373 GGGAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (17 bp):
ATAAAAATAATAATAAT
Found at i:78216524 original size:3 final size:3
Alignment explanation
Indices: 78216516--78216670 Score: 90
Period size: 3 Copynumber: 52.0 Consensus size: 3
78216506 TAGTACCATG
* * * *
78216516 ATA ATA ATA ACA ATA ATA ATA ATA A-A ATA ATA AAA ATA ACA AT- ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
78216562 TTA TTA ATA ATA ATA ATAA ATAA ATA ATG GTA ATAA ATA TATA A-A ATA
1 ATA ATA ATA ATA ATA AT-A AT-A ATA ATA ATA AT-A ATA -ATA ATA ATA
* ** *
78216610 ATA GTA CCA GTA ATA A-A ATA A-A TATA AT- ATA ATA A-A TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -ATA ATA
*
78216653 ATA ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA
78216671 TTTAAAAATA
Statistics
Matches: 119, Mismatches: 21, Indels: 24
0.73 0.13 0.15
Matches are distributed among these distances:
2 12 0.10
3 92 0.77
4 15 0.13
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:78217067 original size:17 final size:17
Alignment explanation
Indices: 78217042--78217074 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
78217032 GTGGCAAGTG
78217042 GGGTAATGGAGTTAGTA
1 GGGTAATGGAGTTAGTA
*
78217059 GGGTGATGGAGTTAGT
1 GGGTAATGGAGTTAGT
78217075 GGTCGGTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.45, T:0.30
Consensus pattern (17 bp):
GGGTAATGGAGTTAGTA
Found at i:78217824 original size:19 final size:19
Alignment explanation
Indices: 78217800--78217836 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
78217790 GGTCTTTATG
*
78217800 ATATGGTTATTAGAAATGT
1 ATATGGTCATTAGAAATGT
*
78217819 ATATGGTCATTTGAAATG
1 ATATGGTCATTAGAAATG
78217837 GCTTATTAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.41
Consensus pattern (19 bp):
ATATGGTCATTAGAAATGT
Found at i:78221418 original size:43 final size:41
Alignment explanation
Indices: 78221315--78221482 Score: 160
Period size: 43 Copynumber: 4.0 Consensus size: 41
78221305 AGAACATAGA
* * * *
78221315 AAACGCCGTTAAATAATGTGACTTTTAGCGGCGCTTTCTTGA-
1 AAACGCCGCTAAAAAACGTGAC-TTTAGCGGCGCTTT-TTTAC
* *
78221357 AAACGCCACTAAAGAACGTGATCTTTAGCGGCGCTTTTTCTAC
1 AAACGCCGCTAAAAAACGTGA-CTTTAGCGGCGCTTTTT-TAC
* *
78221400 AAACGTCGCTAAAAAACGTGACCTTTAGTGGCGCTTTTTGTAC
1 AAACGCCGCTAAAAAACGTGA-CTTTAGCGGCGCTTTTT-TAC
* *
78221443 AAACGCCGCT-AAAGACTGTGACTTTTAGCGGTGCTTTTTT
1 AAACGCCGCTAAAAAAC-GTGAC-TTTAGCGGCGCTTTTTT
78221483 TGAAATGCCA
Statistics
Matches: 106, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
41 2 0.02
42 39 0.37
43 65 0.61
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (41 bp):
AAACGCCGCTAAAAAACGTGACTTTAGCGGCGCTTTTTTAC
Found at i:78221658 original size:47 final size:47
Alignment explanation
Indices: 78221589--78221682 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
78221579 AATCCTTCCT
*
78221589 GCAACATCAAATCCAACCAATAACAACGAATCTAAATGATACTTCAA
1 GCAACATCAAATCCAACCAATAACAACAAATCTAAATGATACTTCAA
*
78221636 GCAACATCAAATCTAACCAATAACAACAAATCTAAATGATACTTCAA
1 GCAACATCAAATCCAACCAATAACAACAAATCTAAATGATACTTCAA
78221683 AAATTCAATG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.50, C:0.24, G:0.05, T:0.20
Consensus pattern (47 bp):
GCAACATCAAATCCAACCAATAACAACAAATCTAAATGATACTTCAA
Found at i:78222317 original size:13 final size:14
Alignment explanation
Indices: 78222291--78222319 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
78222281 ACTAATGATG
78222291 AATTAAACCATTAT
1 AATTAAACCATTAT
78222305 AATTAAA-CATTAT
1 AATTAAACCATTAT
78222318 AA
1 AA
78222320 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:78227786 original size:9 final size:9
Alignment explanation
Indices: 78227729--78227845 Score: 84
Period size: 9 Copynumber: 13.4 Consensus size: 9
78227719 GCCCCTGCAT
78227729 TTATGTAAG
1 TTATGTAAG
*
78227738 GTATGTAAG
1 TTATGTAAG
*
78227747 TTATGATATG
1 TTATG-TAAG
* * *
78227757 ATATAT-AT
1 TTATGTAAG
78227765 TTATGT-A-
1 TTATGTAAG
78227772 TTATGTAAG
1 TTATGTAAG
78227781 TTATGTAAG
1 TTATGTAAG
*
78227790 TTATGATATG
1 TTATG-TAAG
* * *
78227800 ATATAT-AT
1 TTATGTAAG
78227808 TTATGT-A-
1 TTATGTAAG
78227815 TTATGTAAG
1 TTATGTAAG
*
78227824 TTTTGTAAG
1 TTATGTAAG
78227833 TTATGTAAG
1 TTATGTAAG
78227842 TTAT
1 TTAT
78227846 TATATGATAT
Statistics
Matches: 84, Mismatches: 18, Indels: 12
0.74 0.16 0.11
Matches are distributed among these distances:
7 12 0.14
8 12 0.14
9 48 0.57
10 12 0.14
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:78227790 original size:43 final size:43
Alignment explanation
Indices: 78227729--78227909 Score: 254
Period size: 43 Copynumber: 4.0 Consensus size: 43
78227719 GCCCCTGCAT
78227729 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
*
78227772 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
*
78227815 TTATGTAAGTTTTGTAAGTTATGTAAGTTATTATATGATATATATTTATGTA
1 TTATGTAA-----G---G-TATGTAAGTTATGATATGATATATATTTATGTA
*
78227867 TTATGTAAGGTATATAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
78227910 AGTTATTATA
Statistics
Matches: 124, Mismatches: 5, Indels: 18
0.84 0.03 0.12
Matches are distributed among these distances:
43 81 0.65
44 1 0.01
47 1 0.01
48 1 0.01
52 40 0.32
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.49
Consensus pattern (43 bp):
TTATGTAAGGTATGTAAGTTATGATATGATATATATTTATGTA
Found at i:78227831 original size:52 final size:49
Alignment explanation
Indices: 78227775--78227909 Score: 192
Period size: 52 Copynumber: 2.8 Consensus size: 49
78227765 TTATGTATTA
78227775 TGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAG
1 TGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAG
*
78227824 TTTTGTAAGTTATGTAAGTTATTATATGATATATATTTATGTATTATGTAAG
1 ---TGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAG
78227876 -GT-A--TA--TAAGTTATGATATGATATATATTTATGTA
1 TGTAAGTTATGTAAGTTATGATATGATATATATTTATGTA
78227910 AGTTATTATA
Statistics
Matches: 81, Mismatches: 2, Indels: 9
0.88 0.02 0.10
Matches are distributed among these distances:
43 28 0.35
45 2 0.02
47 1 0.01
48 2 0.02
52 48 0.59
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (49 bp):
TGTAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAG
Found at i:78227895 original size:95 final size:95
Alignment explanation
Indices: 78227732--78227909 Score: 320
Period size: 95 Copynumber: 1.9 Consensus size: 95
78227722 CCTGCATTTA
* *
78227732 TGTAAGGTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGAT
1 TGTAAGGTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGGTATATAAGTTATGAT
78227797 ATGATATATATTTATGTATTATGTAAGTTT
66 ATGATATATATTTATGTATTATGTAAGTTT
* *
78227827 TGTAAGTTATGTAAGTTATTATATGATATATATTTATGTATTATGTAAGGTATATAAGTTATGAT
1 TGTAAGGTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGGTATATAAGTTATGAT
78227892 ATGATATATATTTATGTA
66 ATGATATATATTTATGTA
78227910 AGTTATTATA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 79 1.00
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (95 bp):
TGTAAGGTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGGTATATAAGTTATGAT
ATGATATATATTTATGTATTATGTAAGTTT
Found at i:78230932 original size:39 final size:40
Alignment explanation
Indices: 78230877--78231047 Score: 224
Period size: 39 Copynumber: 4.3 Consensus size: 40
78230867 GGACTAAGAT
* *
78230877 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
78230916 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* *
78230955 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* * * *
78230995 CCGAAGGCATTCGTGTGAGTTACTATAA-CCGGGGTT-TGTC
1 CCGAAGGCATTTGTGCGAGTTAATA-AATCC-GGGTTAAGTC
78231035 CCGAAGGCATTTG
1 CCGAAGGCATTTG
78231048 AGCTAGTCGT
Statistics
Matches: 121, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 73 0.60
40 41 0.34
41 7 0.06
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
Found at i:78237630 original size:99 final size:99
Alignment explanation
Indices: 78237450--78237648 Score: 341
Period size: 99 Copynumber: 2.0 Consensus size: 99
78237440 CCCCCTAATA
*
78237450 GCTAGTGGCCGGCCATGACAAGGAAATAATGGGCAAGACATGTCATGAACAGATTTTTGTAAGGC
1 GCTAGTGGCCGGCCATGACAAGGAAATAATGGGCAAGACATGTCATGAACACATTTTTGTAAGGC
78237515 ATTATGTAAGGAAGAAATAAAATAAGATGCATGG
66 ATTATGTAAGGAAGAAATAAAATAAGATGCATGG
78237549 GCTAGTGGCCGGCCATGACAAGGAAAT-ATGGGCAAGACATGTCATGAA-ACATGTTTTGTAAGT
1 GCTAGTGGCCGGCCATGACAAGGAAATAATGGGCAAGACATGTCATGAACACAT-TTTTGTAAG-
78237612 GCATTAATGTAAGG-AGAAATAAAATAAGATGCATGG
64 GCATT-ATGTAAGGAAGAAATAAAATAAGATGCATGG
78237648 G
1 G
78237649 TAATAAAAAA
Statistics
Matches: 96, Mismatches: 1, Indels: 6
0.93 0.01 0.06
Matches are distributed among these distances:
97 3 0.03
98 30 0.31
99 55 0.57
100 8 0.08
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.23
Consensus pattern (99 bp):
GCTAGTGGCCGGCCATGACAAGGAAATAATGGGCAAGACATGTCATGAACACATTTTTGTAAGGC
ATTATGTAAGGAAGAAATAAAATAAGATGCATGG
Found at i:78246847 original size:38 final size:39
Alignment explanation
Indices: 78246757--78246925 Score: 218
Period size: 39 Copynumber: 4.3 Consensus size: 39
78246747 GGACTAAGAT
* *
78246757 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAGC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGC
78246796 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAG-
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGC
* *
78246834 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAG-C
* * * *
78246874 CCGAAGGCATTCGTGCGAGTTACTATAA-CCGGGGTT-TGT
1 CCGAAGGCATTTGTGCGAGTTAATA-AATCC-GGGTTAAGC
78246913 CCGAAGGCATTTG
1 CCGAAGGCATTTG
78246926 AGCTAGTCGT
Statistics
Matches: 118, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
38 36 0.31
39 48 0.41
40 27 0.23
41 7 0.06
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGC
Found at i:78246948 original size:78 final size:78
Alignment explanation
Indices: 78246757--78246933 Score: 198
Period size: 77 Copynumber: 2.3 Consensus size: 78
78246747 GGACTAAGAT
* * * * * *
78246757 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTAATA
1 CCGAAGGCATTTGAGCGAGTCACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAATA
78246821 AATCCGGGTTAAG
66 AATCCGGGTTAAG
* * * *
78246834 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTA
1 CCGAAGGCATTTGAGCGAGTCACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAATA
*
78246899 TAA-CCGGGGTT-TG
66 -AATCC-GGGTTAAG
*
78246912 TCCGAAGGCATTTGAGCTAGTC
1 -CCGAAGGCATTTGAGCGAGTC
78246934 GTTATATCCG
Statistics
Matches: 86, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
77 34 0.40
78 27 0.31
79 25 0.29
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (78 bp):
CCGAAGGCATTTGAGCGAGTCACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAATA
AATCCGGGTTAAG
Found at i:78252564 original size:15 final size:15
Alignment explanation
Indices: 78252544--78252576 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
78252534 TACAATCATT
78252544 TTTTAGAATTATCCC
1 TTTTAGAATTATCCC
78252559 TTTTAGAATTATCCC
1 TTTTAGAATTATCCC
78252574 TTT
1 TTT
78252577 CATATTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.52
Consensus pattern (15 bp):
TTTTAGAATTATCCC
Found at i:78258078 original size:16 final size:15
Alignment explanation
Indices: 78258050--78258097 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
78258040 TCAATCATAC
78258050 AATACTCAATTCATG
1 AATACTCAATTCATG
*
78258065 AATACATCATTTCAT-
1 AATAC-TCAATTCATG
78258080 ACCATACTCAATTCATG
1 A--ATACTCAATTCATG
78258097 A
1 A
78258098 GTATATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 6 0.22
16 16 0.59
17 5 0.19
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (15 bp):
AATACTCAATTCATG
Found at i:78259580 original size:35 final size:35
Alignment explanation
Indices: 78259513--78259680 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
78259503 TCCTCATTGA
*** *
78259513 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
78259549 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
78259589 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
78259624 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
78259659 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
78259681 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:78259639 original size:75 final size:73
Alignment explanation
Indices: 78259508--78259680 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
78259498 GGTTTTCCTC
*** * * **
78259508 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
78259573 TCAGTATGG
65 TCAGTATGG
*
78259582 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
78259646 ACTCAGTATGG
63 ACTCAGTATGG
78259657 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
78259681 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:78261667 original size:22 final size:20
Alignment explanation
Indices: 78261625--78261662 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
78261615 CTAAATCGAT
* *
78261625 ATTAATTTTATTTTTTCACA
1 ATTAATCTTATATTTTCACA
78261645 ATTAATCTTATATTTTCA
1 ATTAATCTTATATTTTCA
78261663 TACAAATTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTAATCTTATATTTTCACA
Found at i:78262008 original size:4 final size:4
Alignment explanation
Indices: 78261999--78262044 Score: 62
Period size: 4 Copynumber: 12.0 Consensus size: 4
78261989 ACCCCGTGGA
78261999 TTTC TTTC -TTC TTTC TCTT- TTTC TTTC TTT- TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC T-TTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
78262045 CTGTTTCGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
3 8 0.21
4 28 0.74
5 2 0.05
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:78262051 original size:15 final size:15
Alignment explanation
Indices: 78262001--78262051 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
78261991 CCCGTGGATT
78262001 TCTTTC-TTCTTTCTC
1 TCTTTCTTTCTTTC-C
* **
78262016 TTTTTCTTTCTTTTT
1 TCTTTCTTTCTTTCC
78262031 TCTTTCTTTCTTTCC
1 TCTTTCTTTCTTTCC
*
78262046 TGTTTC
1 TCTTTC
78262052 GTTTTGCTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
15 22 0.79
16 6 0.21
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (15 bp):
TCTTTCTTTCTTTCC
Found at i:78262087 original size:19 final size:20
Alignment explanation
Indices: 78261999--78262089 Score: 84
Period size: 19 Copynumber: 4.6 Consensus size: 20
78261989 ACCCCGTGGA
78261999 TTTCTTTCTTCTTTCTC-TT-
1 TTTCTTTCTT-TTTCTCTTTC
78262018 TTTCTTTCTTTTT-TCTTTC
1 TTTCTTTCTTTTTCTCTTTC
*
78262037 TTTCTTTCCTGTTTCGT-TTTGC
1 TTTCTTT-CTTTTTC-TCTTT-C
* *
78262059 TTTGTTTCTTTTTCTATTTC
1 TTTCTTTCTTTTTCTCTTTC
78262079 TTT-TTTCTTTT
1 TTTCTTTCTTTT
78262090 ATTTATTTGT
Statistics
Matches: 62, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
17 2 0.03
18 5 0.08
19 25 0.40
20 10 0.16
21 12 0.19
22 8 0.13
ACGTcount: A:0.01, C:0.20, G:0.04, T:0.75
Consensus pattern (20 bp):
TTTCTTTCTTTTTCTCTTTC
Found at i:78266885 original size:57 final size:57
Alignment explanation
Indices: 78266814--78266927 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
78266804 TCATGGTGTT
78266814 GATGTATTTGATGATTTAATGTAGAACTTGCGAATGATTCAAAATTCAAATGAAGGA
1 GATGTATTTGATGATTTAATGTAGAACTTGCGAATGATTCAAAATTCAAATGAAGGA
78266871 GATGTATTTGATGATTTAATGTAGAACTTGCGAATGATTCAAAATTCAAATGAAGGA
1 GATGTATTTGATGATTTAATGTAGAACTTGCGAATGATTCAAAATTCAAATGAAGGA
78266928 ACAGGTGGAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (57 bp):
GATGTATTTGATGATTTAATGTAGAACTTGCGAATGATTCAAAATTCAAATGAAGGA
Found at i:78271860 original size:33 final size:33
Alignment explanation
Indices: 78271814--78271888 Score: 78
Period size: 33 Copynumber: 2.3 Consensus size: 33
78271804 AGCTCCAAAG
* * *
78271814 TGTTCCCACCATAATGCCATTCCAAAAGTTAGT
1 TGTTCCTAACATAATACCATTCCAAAAGTTAGT
*** * *
78271847 TGTTCCTAACATAATATGGTTCCCAAGGTTAGT
1 TGTTCCTAACATAATACCATTCCAAAAGTTAGT
78271880 TGTTCCTAA
1 TGTTCCTAA
78271889 GATTACTTCC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (33 bp):
TGTTCCTAACATAATACCATTCCAAAAGTTAGT
Found at i:78278863 original size:14 final size:15
Alignment explanation
Indices: 78278834--78278868 Score: 54
Period size: 14 Copynumber: 2.3 Consensus size: 15
78278824 CAATTCACAA
78278834 ATTTCAGAATGTATGT
1 ATTT-AGAATGTATGT
78278850 ATTTAGAA-GTATGT
1 ATTTAGAATGTATGT
78278864 ATTTA
1 ATTTA
78278869 TCTAAGCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.58
15 4 0.21
16 4 0.21
ACGTcount: A:0.34, C:0.03, G:0.17, T:0.46
Consensus pattern (15 bp):
ATTTAGAATGTATGT
Found at i:78278890 original size:2 final size:2
Alignment explanation
Indices: 78278883--78278950 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
78278873 AGCACAAAAA
78278883 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
78278925 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
78278951 ATGTTTATAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:78286458 original size:20 final size:21
Alignment explanation
Indices: 78286408--78286460 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 21
78286398 GGATTGTTTA
78286408 AAAATTATAAATAAATTAGAAG
1 AAAATTATAAAT-AATTAGAAG
* *
78286430 -AGATATATAAAT-ATTAGAGG
1 AAAAT-TATAAATAATTAGAAG
78286450 AAAATTATAAA
1 AAAATTATAAA
78286461 AAGTTATGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
20 13 0.50
21 6 0.23
22 7 0.27
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.28
Consensus pattern (21 bp):
AAAATTATAAATAATTAGAAG
Found at i:78286461 original size:8 final size:8
Alignment explanation
Indices: 78286450--78286530 Score: 67
Period size: 8 Copynumber: 9.5 Consensus size: 8
78286440 ATATTAGAGG
78286450 AAAATTAT
1 AAAATTAT
78286458 AAAAAGTTAT
1 -AAAA-TTAT
78286468 GAGAAA-TAT
1 -A-AAATTAT
78286477 AAAAATT-T
1 -AAAATTAT
78286485 AATATATTAT
1 AA-A-ATTAT
78286495 AAAATTAT
1 AAAATTAT
*
78286503 AATATTAT
1 AAAATTAT
78286511 AAAATTAT
1 AAAATTAT
*
78286519 AATATTAT
1 AAAATTAT
78286527 AAAA
1 AAAA
78286531 ACTTTAAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
7 2 0.03
8 34 0.57
9 13 0.22
10 8 0.13
11 3 0.05
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (8 bp):
AAAATTAT
Found at i:78286509 original size:16 final size:16
Alignment explanation
Indices: 78286488--78286530 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
78286478 AAAATTTAAT
78286488 ATATTATAAAATTATA
1 ATATTATAAAATTATA
78286504 ATATTATAAAATTATA
1 ATATTATAAAATTATA
78286520 ATATTATAAAA
1 ATATTATAAAA
78286531 ACTTTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATTATAAAATTATA
Found at i:78286556 original size:20 final size:19
Alignment explanation
Indices: 78286522--78286613 Score: 62
Period size: 20 Copynumber: 4.5 Consensus size: 19
78286512 AAATTATAAT
78286522 ATTA-TAAAAACTTTAAAAA
1 ATTATTAAAAA-TTTAAAAA
78286541 ATTAATTAAAAATTTATAAAA
1 ATT-ATTAAAAATTTA-AAAA
* * *
78286562 ACTATGAAAAGTTATAAAAA
1 ATTATTAAAAATT-TAAAAA
*
78286582 GTTATATTAAAAATGATT-AAAA
1 -AT-TATTAAAAAT--TTAAAAA
78286604 ATTATTAAAA
1 ATTATTAAAA
78286614 GGTTATAAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
19 3 0.05
20 25 0.44
21 15 0.26
22 12 0.21
23 1 0.02
24 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (19 bp):
ATTATTAAAAATTTAAAAA
Found at i:78286580 original size:9 final size:10
Alignment explanation
Indices: 78286523--78286587 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
78286513 AATTATAATA
*
78286523 TTATAAAAAC
1 TTATAAAAAG
*
78286533 TT-TAAAAAA
1 TTATAAAAAG
*
78286542 TTAATTAAAAAT
1 TT-A-TAAAAAG
78286554 TTATAAAAA-
1 TTATAAAAAG
* *
78286563 CTATGAAAAG
1 TTATAAAAAG
78286573 TTATAAAAAG
1 TTATAAAAAG
78286583 TTATA
1 TTATA
78286588 TTAAAAATGA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
9 15 0.33
10 21 0.47
11 1 0.02
12 8 0.18
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (10 bp):
TTATAAAAAG
Found at i:78286592 original size:42 final size:42
Alignment explanation
Indices: 78286535--78286622 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
78286525 ATAAAAACTT
*
78286535 TAAAAAATTAATTAAAAAT-TTATAAAAACTATGAAAA-GTTA
1 TAAAAAATTAATTAAAAATGAT-TAAAAACTATGAAAAGGTTA
* * *
78286576 TAAAAAGTTATATTAAAAATGATTAAAAATTATTAAAAGGTTA
1 TAAAAAATTA-ATTAAAAATGATTAAAAACTATGAAAAGGTTA
78286619 TAAA
1 TAAA
78286623 TTTTAAAGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
41 9 0.22
42 22 0.55
43 9 0.22
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.33
Consensus pattern (42 bp):
TAAAAAATTAATTAAAAATGATTAAAAACTATGAAAAGGTTA
Found at i:78286622 original size:20 final size:19
Alignment explanation
Indices: 78286450--78286622 Score: 69
Period size: 16 Copynumber: 9.1 Consensus size: 19
78286440 ATATTAGAGG
*
78286450 AAAATTATAAAAAGTTATGA
1 AAAATTATTAAAAGTTAT-A
* *
78286470 GAAA-TA-TAAAAATT-TA
1 AAAATTATTAAAAGTTATA
*
78286486 ATATATTA-TAAAA-TTAT-
1 A-AAATTATTAAAAGTTATA
*
78286503 AATATTA-TAAAA-TTAT-
1 AAAATTATTAAAAGTTATA
* * *
78286519 AATATTATAAAAACTT-TAA
1 AAAATTATTAAAAGTTAT-A
*
78286538 AAAATTAATTAAAAATTTATA
1 AAAATT-ATT-AAAAGTTATA
* *
78286559 AAAACTATGAAAAGTTATA
1 AAAATTATTAAAAGTTATA
* *
78286578 AAAAGTTATATTAAAAATGATTA
1 AAAA--T-TATTAAAAGTTA-TA
78286601 AAAATTATTAAAAGGTTATA
1 AAAATTATTAAAA-GTTATA
78286621 AA
1 AA
78286623 TTTTAAAGTA
Statistics
Matches: 120, Mismatches: 18, Indels: 30
0.71 0.11 0.18
Matches are distributed among these distances:
16 23 0.19
17 11 0.09
18 16 0.13
19 20 0.17
20 19 0.16
21 15 0.12
22 10 0.08
23 6 0.05
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.35
Consensus pattern (19 bp):
AAAATTATTAAAAGTTATA
Found at i:78286972 original size:28 final size:29
Alignment explanation
Indices: 78286917--78286974 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
78286907 TTGAGTAATG
** *
78286917 TTAATAATATTTATATTTTTCTATAATTT
1 TTAATAATATTTATATTTTAATAAAATTT
78286946 TTAA-AATATTTATATTTTAATAAAATTT
1 TTAATAATATTTATATTTTAATAAAATTT
78286974 T
1 T
78286975 AGAATTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (29 bp):
TTAATAATATTTATATTTTAATAAAATTT
Found at i:78286988 original size:22 final size:22
Alignment explanation
Indices: 78286960--78287001 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
78286950 AATATTTATA
78286960 TTTTAATAAAATTTTAGAATTT
1 TTTTAATAAAATTTTAGAATTT
78286982 TTTTAATAAAATTTTAGAAT
1 TTTTAATAAAATTTTAGAAT
78287002 CCTTTAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
TTTTAATAAAATTTTAGAATTT
Found at i:78307180 original size:8 final size:8
Alignment explanation
Indices: 78307167--78307191 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
78307157 AGAATTGTGG
78307167 ATGTGGAA
1 ATGTGGAA
78307175 ATGTGGAA
1 ATGTGGAA
78307183 ATGTGGAA
1 ATGTGGAA
78307191 A
1 A
78307192 AAGATTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (8 bp):
ATGTGGAA
Found at i:78314499 original size:29 final size:29
Alignment explanation
Indices: 78314460--78314534 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
78314450 GGTTGAGAGA
* *
78314460 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
78314489 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
78314518 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
78314535 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:78316202 original size:20 final size:22
Alignment explanation
Indices: 78316156--78316203 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
78316146 CTGTAAAAGT
*
78316156 TATTTATCTATCAATAATCTTTC
1 TATTT-TCTATCAATAATATTTC
78316179 -ATTTTCTATC-ATAA-ATTTC
1 TATTTTCTATCAATAATATTTC
78316198 TATTTT
1 TATTTT
78316204 TCTGTATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 9 0.39
21 6 0.26
22 4 0.17
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTTTCTATCAATAATATTTC
Found at i:78316420 original size:14 final size:14
Alignment explanation
Indices: 78316401--78316450 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
78316391 TTTAGGTTGG
78316401 AGATGATGAAAATA
1 AGATGATGAAAATA
**
78316415 AGATGAT-ATATTTGA
1 AGATGATGA-AAAT-A
78316430 AGATGATGAAAATA
1 AGATGATGAAAATA
78316444 AGATGAT
1 AGATGAT
78316451 ATATTTTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 1 0.03
14 17 0.59
15 10 0.34
16 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.22, T:0.28
Consensus pattern (14 bp):
AGATGATGAAAATA
Found at i:78316443 original size:29 final size:29
Alignment explanation
Indices: 78316401--78316456 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
78316391 TTTAGGTTGG
78316401 AGATGATGAAAATAAGATGATATATTTGA
1 AGATGATGAAAATAAGATGATATATTTGA
78316430 AGATGATGAAAATAAGATGATATATTT
1 AGATGATGAAAATAAGATGATATATTT
78316457 TCTTTTCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (29 bp):
AGATGATGAAAATAAGATGATATATTTGA
Found at i:78321941 original size:2 final size:2
Alignment explanation
Indices: 78321936--78321964 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
78321926 TTTCACACAC
78321936 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
78321965 ATGATATTGC
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:78328477 original size:2 final size:2
Alignment explanation
Indices: 78328470--78328501 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
78328460 AATCACAGAC
78328470 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
78328502 TCAAACAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78330077 original size:9 final size:10
Alignment explanation
Indices: 78330054--78330079 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
78330044 CTACGGTAAA
78330054 AAAAATTCAT
1 AAAAATTCAT
78330064 AAAAATTCAT
1 AAAAATTCAT
78330074 AAAAAT
1 AAAAAT
78330080 GGCTAAGGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATTCAT
Found at i:78333726 original size:21 final size:21
Alignment explanation
Indices: 78333702--78333745 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
78333692 ATAGGAGAGT
78333702 AAAAAGAGCGAG-AAACAGGCC
1 AAAAA-AGCGAGAAAACAGGCC
* *
78333723 AAAAAAGGGAGAAAACGGGCC
1 AAAAAAGCGAGAAAACAGGCC
78333744 AA
1 AA
78333746 CATGAGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.55, C:0.16, G:0.30, T:0.00
Consensus pattern (21 bp):
AAAAAAGCGAGAAAACAGGCC
Found at i:78349078 original size:29 final size:29
Alignment explanation
Indices: 78349042--78349204 Score: 202
Period size: 29 Copynumber: 5.6 Consensus size: 29
78349032 AATAAACGAT
***
78349042 CTCGCACACTTAGTGCCATGCGATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
*
78349071 CTCGCACACATAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
* *
78349100 TTTGCACACTTAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
*
78349129 TTCGCACACTTAGTGCCATATAATTTAAG
1 CTCGCACACTTAGTGCCATATAATTTAAG
* ** *
78349158 TTCGCACACTTAGTGCCATA-CCTTCCAAG
1 CTCGCACACTTAGTGCCATATAATT-TAAG
*
78349187 CCCGCACACTTAGTGCCA
1 CTCGCACACTTAGTGCCA
78349205 ATCTTGTCAC
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
28 2 0.02
29 118 0.98
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CTCGCACACTTAGTGCCATATAATTTAAG
Found at i:78349229 original size:36 final size:36
Alignment explanation
Indices: 78349177--78349256 Score: 142
Period size: 36 Copynumber: 2.2 Consensus size: 36
78349167 TTAGTGCCAT
*
78349177 ACCTTCCAAGCCCGCACACTTAGTGCCAATCTTGTC
1 ACCTGCCAAGCCCGCACACTTAGTGCCAATCTTGTC
78349213 ACCTGCCAAGCCCGCACACTTAGTGCCAATCTTGTC
1 ACCTGCCAAGCCCGCACACTTAGTGCCAATCTTGTC
78349249 ACCGTGCC
1 ACC-TGCC
78349257 CATTTATTGC
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 38 0.90
37 4 0.10
ACGTcount: A:0.21, C:0.40, G:0.16, T:0.23
Consensus pattern (36 bp):
ACCTGCCAAGCCCGCACACTTAGTGCCAATCTTGTC
Done.