Tandem Repeats Finder Program written by: Gary Benson Program in Bioinformatics Boston University Version 4.09 Sequence: Chr04 98600468 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: 98600468 ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32 Warning! 273 characters in sequence are not A, C, G, or T File 172 of 325 Found at i:52905072 original size:16 final size:16 Alignment explanation
Indices: 52905053--52905084 Score: 55 Period size: 16 Copynumber: 2.0 Consensus size: 16 52905043 TATTTTTTTC 52905053 TGGAACAATTTCATGT 1 TGGAACAATTTCATGT * 52905069 TGGAATAATTTCATGT 1 TGGAACAATTTCATGT 52905085 GTCTAGCTAA Statistics Matches: 15, Mismatches: 1, Indels: 0 0.94 0.06 0.00 Matches are distributed among these distances: 16 15 1.00 ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41 Consensus pattern (16 bp): TGGAACAATTTCATGT Found at i:52905185 original size:28 final size:28 Alignment explanation
Indices: 52905154--52905221 Score: 75 Period size: 28 Copynumber: 2.4 Consensus size: 28 52905144 ATTGTGGTGT * * 52905154 TTAATGTGTCTTAGTTTAATGCATG-TTA 1 TTAATGTGTCTTAGCTTAATACA-GATTA * * * 52905182 TTAATATGTCCTAGCTTAATACAGATTT 1 TTAATGTGTCTTAGCTTAATACAGATTA 52905210 TTAATGTGTCTT 1 TTAATGTGTCTT 52905222 GGCTGCTGCT Statistics Matches: 32, Mismatches: 7, Indels: 2 0.78 0.17 0.05 Matches are distributed among these distances: 27 1 0.03 28 31 0.97 ACGTcount: A:0.26, C:0.10, G:0.15, T:0.49 Consensus pattern (28 bp): TTAATGTGTCTTAGCTTAATACAGATTA Found at i:52908363 original size:29 final size:28 Alignment explanation
Indices: 52908330--52908385 Score: 67 Period size: 29 Copynumber: 2.0 Consensus size: 28 52908320 ATCACTCATT 52908330 TTTTTCACTTTCCTTACTATTTTCTTTTG 1 TTTTTCACTTTCCTTACT-TTTTCTTTTG ** * * 52908359 TTTTTTTCTTTCTTTTCTTTTTCTTTT 1 TTTTTCACTTTCCTTACTTTTTCTTTT 52908386 TTTCTTTCTT Statistics Matches: 23, Mismatches: 4, Indels: 1 0.82 0.14 0.04 Matches are distributed among these distances: 28 9 0.39 29 14 0.61 ACGTcount: A:0.05, C:0.18, G:0.02, T:0.75 Consensus pattern (28 bp): TTTTTCACTTTCCTTACTTTTTCTTTTG Found at i:52908372 original size:17 final size:16 Alignment explanation
Indices: 52908350--52908401 Score: 54 Period size: 15 Copynumber: 3.2 Consensus size: 16 52908340 TCCTTACTAT 52908350 TTTCTTTTGTTTTTTTC 1 TTTCTTTT-TTTTTTTC * 52908367 TTTC-TTTTCTTTTTC 1 TTTCTTTTTTTTTTTC 52908382 TTT-TTTTCTTTCTTTTC 1 TTTCTTTT-TTT-TTTTC 52908399 TTT 1 TTT 52908402 TTCATTTTCA Statistics Matches: 30, Mismatches: 2, Indels: 6 0.79 0.05 0.16 Matches are distributed among these distances: 15 13 0.43 16 5 0.17 17 12 0.40 ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83 Consensus pattern (16 bp): TTTCTTTTTTTTTTTC Found at i:52908385 original size:23 final size:23 Alignment explanation
Indices: 52908349--52908435 Score: 108 Period size: 23 Copynumber: 3.9 Consensus size: 23 52908339 TTCCTTACTA * 52908349 TTTTC-TTTTGTTTTTTTCTTTC 1 TTTTCTTTTTCTTTTTTTCTTTC 52908371 TTTTCTTTTTCTTTTTTTCTTTC 1 TTTTCTTTTTCTTTTTTTCTTTC * ** 52908394 TTTTCTTTTTC--ATTTTCACTC 1 TTTTCTTTTTCTTTTTTTCTTTC 52908415 TTTTCTTTTTGCTTTTTTTCT 1 TTTTCTTTTT-CTTTTTTTCT 52908436 CTCAACTGAT Statistics Matches: 55, Mismatches: 6, Indels: 6 0.82 0.09 0.09 Matches are distributed among these distances: 21 17 0.31 22 6 0.11 23 27 0.49 24 5 0.09 ACGTcount: A:0.02, C:0.17, G:0.02, T:0.78 Consensus pattern (23 bp): TTTTCTTTTTCTTTTTTTCTTTC Found at i:52908403 original size:17 final size:17 Alignment explanation
Indices: 52908350--52908401 Score: 65 Period size: 17 Copynumber: 3.2 Consensus size: 17 52908340 TCCTTACTAT * 52908350 TTTCTTTTGTTTTTTTC 1 TTTCTTTTCTTTTTTTC 52908367 TTTCTTTTC--TTTTTC 1 TTTCTTTTCTTTTTTTC 52908382 TTT-TTTTCTTTCTTTTC 1 TTTCTTTTCTTT-TTTTC 52908399 TTT 1 TTT 52908402 TTCATTTTCA Statistics Matches: 31, Mismatches: 1, Indels: 6 0.82 0.03 0.16 Matches are distributed among these distances: 14 5 0.16 15 9 0.29 16 1 0.03 17 16 0.52 ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83 Consensus pattern (17 bp): TTTCTTTTCTTTTTTTC Found at i:52908410 original size:17 final size:16 Alignment explanation
Indices: 52908349--52908410 Score: 61 Period size: 17 Copynumber: 3.6 Consensus size: 16 52908339 TTCCTTACTA * * 52908349 TTTTCTTTTGTTTTTT 1 TTTTCTTTTCTTTTCT 52908365 TCTTTCTTTTCTTTTTCT 1 T-TTTCTTTTC-TTTTCT * 52908383 TTTTTTCTTTCTTTTCT 1 TTTTCT-TTTCTTTTCT 52908400 TTTTCATTTTC 1 TTTTC-TTTTC 52908411 ACTCTTTTCT Statistics Matches: 38, Mismatches: 4, Indels: 7 0.78 0.08 0.14 Matches are distributed among these distances: 16 1 0.03 17 26 0.68 18 11 0.29 ACGTcount: A:0.02, C:0.16, G:0.02, T:0.81 Consensus pattern (16 bp): TTTTCTTTTCTTTTCT Found at i:52908431 original size:7 final size:6 Alignment explanation
Indices: 52908349--52908431 Score: 59 Period size: 6 Copynumber: 13.7 Consensus size: 6 52908339 TTCCTTACTA * 52908349 TTTTCT TTTGT-T TTTT-T CTTTC- TTTTCT TTTTCT TTTT-T TCTTTC- 1 TTTTCT TTT-TCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT T-TTTCT * 52908394 TTTTCT TTTTCAT TTTCACT CTTTTCT TTTTGCT TTTT 1 TTTTCT TTTTC-T TTT-TCT -TTTTCT TTTT-CT TTTT 52908432 TTCTCTCAAC Statistics Matches: 63, Mismatches: 4, Indels: 19 0.73 0.05 0.22 Matches are distributed among these distances: 5 15 0.24 6 30 0.48 7 14 0.22 8 4 0.06 ACGTcount: A:0.02, C:0.17, G:0.02, T:0.78 Consensus pattern (6 bp): TTTTCT Found at i:52910445 original size:21 final size:22 Alignment explanation
Indices: 52910419--52910462 Score: 63 Period size: 21 Copynumber: 2.0 Consensus size: 22 52910409 AAACGAGCTC 52910419 GTTGAGCTAAGTTGAG-TTGAA 1 GTTGAGCTAAGTTGAGCTTGAA * * 52910440 GTTGAGCTGATTTGAGCTTGAA 1 GTTGAGCTAAGTTGAGCTTGAA 52910462 G 1 G 52910463 GAGTATGCAT Statistics Matches: 20, Mismatches: 2, Indels: 1 0.87 0.09 0.04 Matches are distributed among these distances: 21 14 0.70 22 6 0.30 ACGTcount: A:0.25, C:0.07, G:0.34, T:0.34 Consensus pattern (22 bp): GTTGAGCTAAGTTGAGCTTGAA Found at i:52915495 original size:11 final size:13 Alignment explanation
Indices: 52915479--52915511 Score: 52 Period size: 13 Copynumber: 2.7 Consensus size: 13 52915469 ATAAATCACT 52915479 TTTTTTTTC-G-A 1 TTTTTTTTCGGAA 52915490 TTTTTTTTCGGAA 1 TTTTTTTTCGGAA 52915503 TTTTTTTTC 1 TTTTTTTTC 52915512 AAACTTGTAT Statistics Matches: 20, Mismatches: 0, Indels: 2 0.91 0.00 0.09 Matches are distributed among these distances: 11 9 0.45 12 1 0.05 13 10 0.50 ACGTcount: A:0.09, C:0.09, G:0.09, T:0.73 Consensus pattern (13 bp): TTTTTTTTCGGAA Found at i:52917099 original size:21 final size:22 Alignment explanation
Indices: 52917073--52917116 Score: 63 Period size: 21 Copynumber: 2.0 Consensus size: 22 52917063 AAACGAGCTC 52917073 GTTGAGCTAAGTTGAG-TTGAA 1 GTTGAGCTAAGTTGAGCTTGAA * * 52917094 GTTGAGCTGATTTGAGCTTGAA 1 GTTGAGCTAAGTTGAGCTTGAA 52917116 G 1 G 52917117 GAGTATGCAT Statistics Matches: 20, Mismatches: 2, Indels: 1 0.87 0.09 0.04 Matches are distributed among these distances: 21 14 0.70 22 6 0.30 ACGTcount: A:0.25, C:0.07, G:0.34, T:0.34 Consensus pattern (22 bp): GTTGAGCTAAGTTGAGCTTGAA Found at i:52918993 original size:10 final size:10 Alignment explanation
Indices: 52918977--52919008 Score: 55 Period size: 10 Copynumber: 3.2 Consensus size: 10 52918967 ATCAGCTCAC 52918977 TTGAGCTCGT 1 TTGAGCTCGT * 52918987 TTTAGCTCGT 1 TTGAGCTCGT 52918997 TTGAGCTCGT 1 TTGAGCTCGT 52919007 TT 1 TT 52919009 CGGCATGAGC Statistics Matches: 20, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 10 20 1.00 ACGTcount: A:0.09, C:0.19, G:0.25, T:0.47 Consensus pattern (10 bp): TTGAGCTCGT Found at i:52920709 original size:18 final size:19 Alignment explanation
Indices: 52920686--52920724 Score: 53 Period size: 18 Copynumber: 2.1 Consensus size: 19 52920676 TTTATCTCAA * 52920686 TTTCTTTTTC-CACTCTTT 1 TTTCTTGTTCACACTCTTT * 52920704 TTTCTTGTTCACATTCTTT 1 TTTCTTGTTCACACTCTTT 52920723 TT 1 TT 52920725 CTCTCTCAAA Statistics Matches: 18, Mismatches: 2, Indels: 1 0.86 0.10 0.05 Matches are distributed among these distances: 18 9 0.50 19 9 0.50 ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67 Consensus pattern (19 bp): TTTCTTGTTCACACTCTTT Found at i:52920763 original size:18 final size:18 Alignment explanation
Indices: 52920742--52920791 Score: 82 Period size: 18 Copynumber: 2.8 Consensus size: 18 52920732 AAACTCTTTT 52920742 TCATTCTCTTTTTCAATC 1 TCATTCTCTTTTTCAATC * 52920760 TCATTTTCTTTTTCAATC 1 TCATTCTCTTTTTCAATC * 52920778 TCAATCTCTTTTTC 1 TCATTCTCTTTTTC 52920792 TTTTTCTTTC Statistics Matches: 29, Mismatches: 3, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 18 29 1.00 ACGTcount: A:0.16, C:0.26, G:0.00, T:0.58 Consensus pattern (18 bp): TCATTCTCTTTTTCAATC Found at i:52923322 original size:20 final size:19 Alignment explanation
Indices: 52923258--52923323 Score: 51 Period size: 20 Copynumber: 3.3 Consensus size: 19 52923248 AAGAAAGAAG * 52923258 GAGCTGAAAGTAAGCTCGATT 1 GAGCTCAAA-TAAGCT-GATT ** ** 52923279 GAGCTCAAACGAGCTGAAAC 1 GAGCTCAAATAAGCTG-ATT 52923299 GAGCTCAAATAAGCTGAGTT 1 GAGCTCAAATAAGCTGA-TT 52923319 GAGCT 1 GAGCT 52923324 GGACGGAGCT Statistics Matches: 34, Mismatches: 9, Indels: 5 0.71 0.19 0.10 Matches are distributed among these distances: 19 2 0.06 20 24 0.71 21 8 0.24 ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20 Consensus pattern (19 bp): GAGCTCAAATAAGCTGATT Found at i:52925178 original size:29 final size:28 Alignment explanation
Indices: 52925146--52925248 Score: 116 Period size: 29 Copynumber: 3.6 Consensus size: 28 52925136 GTGACGAGAT * * 52925146 TGGCACTGAGTGTGCGAGCTTGTAATGTA 1 TGGCACTAAGTGTGCGAGCTTG-AATATA * * 52925175 TGGCACTAAGTGTGCGAGTTTGGACTATA 1 TGGCACTAAGTGTGCGAGCTT-GAATATA * * * 52925204 TGGCACTATGTGTGCGGGCTTGAATCACA 1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA 52925233 TGGCACTAAGTGTGCG 1 TGGCACTAAGTGTGCG 52925249 TGATTGAGTA Statistics Matches: 62, Mismatches: 10, Indels: 4 0.82 0.13 0.05 Matches are distributed among these distances: 28 3 0.05 29 58 0.94 30 1 0.02 ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29 Consensus pattern (28 bp): TGGCACTAAGTGTGCGAGCTTGAATATA Found at i:52936133 original size:29 final size:28 Alignment explanation
Indices: 52936101--52936203 Score: 116 Period size: 29 Copynumber: 3.6 Consensus size: 28 52936091 GTGACGAGAT * * 52936101 TGGCACTGAGTGTGCGAGCTTGTAATGTA 1 TGGCACTAAGTGTGCGAGCTTG-AATATA * * 52936130 TGGCACTAAGTGTGCGAGTTTGGACTATA 1 TGGCACTAAGTGTGCGAGCTT-GAATATA * * * 52936159 TGGCACTATGTGTGCGGGCTTGAATCACA 1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA 52936188 TGGCACTAAGTGTGCG 1 TGGCACTAAGTGTGCG 52936204 TGATTGAGTA Statistics Matches: 62, Mismatches: 10, Indels: 4 0.82 0.13 0.05 Matches are distributed among these distances: 28 3 0.05 29 58 0.94 30 1 0.02 ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29 Consensus pattern (28 bp): TGGCACTAAGTGTGCGAGCTTGAATATA Found at i:52941179 original size:18 final size:18 Alignment explanation
Indices: 52941156--52941219 Score: 55 Period size: 18 Copynumber: 3.7 Consensus size: 18 52941146 TTTGATCAAA 52941156 CTCTTTTTCTTTCTCATT 1 CTCTTTTTCTTTCTCATT ** 52941174 CTCTTTTTCAATCTCATT 1 CTCTTTTTCTTTCTCATT * * 52941192 -T-TGTTTC-CTCTC-TT 1 CTCTTTTTCTTTCTCATT 52941206 CCTCTTTTTCTTTC 1 -CTCTTTTTCTTTC 52941220 ATTTCTTTGT Statistics Matches: 36, Mismatches: 6, Indels: 8 0.72 0.12 0.16 Matches are distributed among these distances: 14 2 0.06 15 4 0.11 16 6 0.17 17 6 0.17 18 18 0.50 ACGTcount: A:0.06, C:0.30, G:0.02, T:0.62 Consensus pattern (18 bp): CTCTTTTTCTTTCTCATT Found at i:52947257 original size:30 final size:30 Alignment explanation
Indices: 52947223--52947319 Score: 90 Period size: 30 Copynumber: 3.2 Consensus size: 30 52947213 TAAACTAAAA 52947223 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT 1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT * * * * * * 52947253 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT 1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT * * 52947283 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG- 1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT 52947313 TGAGCTA 1 TGAGCTA 52947320 GGAGTGAGCT Statistics Matches: 50, Mismatches: 14, Indels: 6 0.71 0.20 0.09 Matches are distributed among these distances: 29 2 0.04 30 42 0.84 31 6 0.12 ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28 Consensus pattern (30 bp): TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT Found at i:52949503 original size:30 final size:30 Alignment explanation
Indices: 52949432--52949514 Score: 89 Period size: 30 Copynumber: 2.7 Consensus size: 30 52949422 CTTTTGTTTC * * 52949432 AATTTCTTTTTCATCTTCTTTTTCACTCTCA 1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA 52949463 AATTTC-TTTTCGTTCTCTTTTTCAATCTC- 1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA * * 52949492 ATTTTCTTTTTCATTTTCTTTTT 1 AATTTCTTTTTC-TTCTCTTTTT 52949515 GCTTTTCAAA Statistics Matches: 45, Mismatches: 5, Indels: 5 0.82 0.09 0.09 Matches are distributed among these distances: 29 5 0.11 30 32 0.71 31 8 0.18 ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64 Consensus pattern (30 bp): AATTTCTTTTTCTTCTCTTTTTCAATCTCA Found at i:52949514 original size:18 final size:18 Alignment explanation
Indices: 52949465--52949520 Score: 51 Period size: 18 Copynumber: 3.1 Consensus size: 18 52949455 CACTCTCAAA * * 52949465 TTTC-TTTTCGTTCTCTT 1 TTTCATTTTCATTTTCTT * * 52949482 TTTCAATCTCATTTTCTT 1 TTTCATTTTCATTTTCTT * 52949500 TTTCATTTTCTTTTTGCTT 1 TTTCATTTTCATTTT-CTT 52949519 TT 1 TT 52949521 CAAAGGCTTT Statistics Matches: 30, Mismatches: 7, Indels: 2 0.77 0.18 0.05 Matches are distributed among these distances: 17 4 0.13 18 21 0.70 19 5 0.17 ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70 Consensus pattern (18 bp): TTTCATTTTCATTTTCTT Found at i:52949521 original size:12 final size:12 Alignment explanation
Indices: 52949490--52949514 Score: 50 Period size: 12 Copynumber: 2.1 Consensus size: 12 52949480 TTTTTCAATC 52949490 TCATTTTCTTTT 1 TCATTTTCTTTT 52949502 TCATTTTCTTTT 1 TCATTTTCTTTT 52949514 T 1 T 52949515 GCTTTTCAAA Statistics Matches: 13, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 12 13 1.00 ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76 Consensus pattern (12 bp): TCATTTTCTTTT Found at i:52949532 original size:12 final size:12 Alignment explanation
Indices: 52949517--52949547 Score: 53 Period size: 12 Copynumber: 2.6 Consensus size: 12 52949507 TTCTTTTTGC 52949517 TTTTCAAAGGCT 1 TTTTCAAAGGCT 52949529 TTTTCAAAGGCT 1 TTTTCAAAGGCT * 52949541 CTTTCAA 1 TTTTCAA 52949548 GTTCTCTCAA Statistics Matches: 18, Mismatches: 1, Indels: 0 0.95 0.05 0.00 Matches are distributed among these distances: 12 18 1.00 ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42 Consensus pattern (12 bp): TTTTCAAAGGCT Found at i:52949605 original size:5 final size:5 Alignment explanation
Indices: 52949595--52949642 Score: 53 Period size: 5 Copynumber: 9.0 Consensus size: 5 52949585 CTCTTGCCTC 52949595 TCTTT TCTTT T-TATT TCTTTT TCTTTT TCTTTT TCTTT TCTTT TCTTT 1 TCTTT TCTTT TCT-TT TC-TTT TC-TTT TC-TTT TCTTT TCTTT TCTTT 52949643 ATTTTCTCTT Statistics Matches: 40, Mismatches: 0, Indels: 6 0.87 0.00 0.13 Matches are distributed among these distances: 4 1 0.03 5 22 0.55 6 16 0.40 7 1 0.03 ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81 Consensus pattern (5 bp): TCTTT Found at i:52949617 original size:6 final size:6 Alignment explanation
Indices: 52949608--52949642 Score: 56 Period size: 6 Copynumber: 6.2 Consensus size: 6 52949598 TTTCTTTTTA 52949608 TTTCTT TTTCTT TTTCTT TTTC-T TTTC-T TTTCTT T 1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T 52949643 ATTTTCTCTT Statistics Matches: 28, Mismatches: 0, Indels: 2 0.93 0.00 0.07 Matches are distributed among these distances: 5 10 0.36 6 18 0.64 ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83 Consensus pattern (6 bp): TTTCTT Found at i:52949624 original size:22 final size:22 Alignment explanation
Indices: 52949597--52949642 Score: 67 Period size: 22 Copynumber: 2.1 Consensus size: 22 52949587 CTTGCCTCTC 52949597 TTTTCTTTTTA-TTTCTTTTTCT 1 TTTTCTTTTTATTTTC-TTTTCT * 52949619 TTTTCTTTTTCTTTTCTTTTCT 1 TTTTCTTTTTATTTTCTTTTCT 52949641 TT 1 TT 52949643 ATTTTCTCTT Statistics Matches: 22, Mismatches: 1, Indels: 2 0.88 0.04 0.08 Matches are distributed among these distances: 22 18 0.82 23 4 0.18 ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83 Consensus pattern (22 bp): TTTTCTTTTTATTTTCTTTTCT Found at i:52950574 original size:12 final size:11 Alignment explanation
Indices: 52950557--52950610 Score: 56 Period size: 11 Copynumber: 4.7 Consensus size: 11 52950547 CATTAAACAC 52950557 TTTTTTTTCAGA 1 TTTTTTTTCA-A 52950569 -TTTTTTTCGAA 1 TTTTTTTTC-AA * * 52950580 ATTTTTTTGAA 1 TTTTTTTTCAA 52950591 TTTTTTTTCTAA 1 TTTTTTTTC-AA 52950603 TTTTTTTT 1 TTTTTTTT 52950611 GACTTTATAA Statistics Matches: 36, Mismatches: 3, Indels: 6 0.80 0.07 0.13 Matches are distributed among these distances: 11 18 0.50 12 18 0.50 ACGTcount: A:0.17, C:0.06, G:0.06, T:0.72 Consensus pattern (11 bp): TTTTTTTTCAA Found at i:52950595 original size:23 final size:23 Alignment explanation
Indices: 52950569--52950612 Score: 70 Period size: 23 Copynumber: 1.9 Consensus size: 23 52950559 TTTTTTCAGA 52950569 TTTTTTTCGAAATTTTTTTGAAT 1 TTTTTTTCGAAATTTTTTTGAAT * * 52950592 TTTTTTTCTAATTTTTTTTGA 1 TTTTTTTCGAAATTTTTTTGA 52950613 CTTTATAATT Statistics Matches: 19, Mismatches: 2, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 23 19 1.00 ACGTcount: A:0.18, C:0.05, G:0.07, T:0.70 Consensus pattern (23 bp): TTTTTTTCGAAATTTTTTTGAAT Found at i:52960101 original size:30 final size:30 Alignment explanation
Indices: 52960067--52960163 Score: 81 Period size: 30 Copynumber: 3.2 Consensus size: 30 52960057 TAAACTAAAA * 52960067 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT 1 TGAGCTAAGCTTTAGCTCGTAAGCTAAAGT * * * * * 52960097 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT 1 TGAGCT-AAGCTTTAGCTCGTAAGCTAAAGT * * * 52960127 TGAGCTAAGGTTTAGCTCGTCAGTTGAAAG- 1 TGAGCTAAGCTTTAGCTCGTAAGCT-AAAGT 52960157 TGAGCTA 1 TGAGCTA 52960164 GGAGTGAGTT Statistics Matches: 50, Mismatches: 14, Indels: 6 0.71 0.20 0.09 Matches are distributed among these distances: 29 2 0.04 30 42 0.84 31 6 0.12 ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28 Consensus pattern (30 bp): TGAGCTAAGCTTTAGCTCGTAAGCTAAAGT Found at i:52970592 original size:27 final size:27 Alignment explanation
Indices: 52970557--52971092 Score: 244 Period size: 27 Copynumber: 19.9 Consensus size: 27 52970547 AATACTTTAG 52970557 TTTACTAAAATTACCGAAATACCCTCGA 1 TTTA-TAAAATTACCGAAATACCCTCGA * * * * 52970585 TTTGTAAAATTACTGGAATACCTTCGA 1 TTTATAAAATTACCGAAATACCCTCGA * * * * 52970612 CTTGTAAAATTACC-AAAGTACCCCCGG 1 TTTATAAAATTACCGAAA-TACCCTCGA * ** 52970639 TTTATAAAATTATCGAAATACTGTCGA 1 TTTATAAAATTACCGAAATACCCTCGA * * 52970666 -TTGTAAAATTACTGAAATACCCTCGA 1 TTTATAAAATTACCGAAATACCCTCGA * * * * 52970692 CTTGTAAAATTATC-AAAGTACCCCCGA 1 TTTATAAAATTACCGAAA-TACCCTCGA * * * *** 52970719 TTTACAGAATTATCGTTTTACCCTCGA 1 TTTATAAAATTACCGAAATACCCTCGA * * ** * 52970746 TTTACAGAATTACC-ATTTTACCCTCAA 1 TTTATAAAATTACCGA-AATACCCTCGA * *** 52970773 TTTATAGAATTACCGTTTTACCCTCGA 1 TTTATAAAATTACCGAAATACCCTCGA * ** 52970800 TTTATAGAATTACC-ATTTTACCCTCGA 1 TTTATAAAATTACCGA-AATACCCTCGA * * *** 52970827 TTTATAGAATTATCGTTTTACCCTCGA 1 TTTATAAAATTACCGAAATACCCTCGA * *** 52970854 TTTACAAAATTACCGTTTTACCCTCGA 1 TTTATAAAATTACCGAAATACCCTCGA * * ** * * 52970881 TTTACAGAATTACC-ATTTTACCCTTGG 1 TTTATAAAATTACCGA-AATACCCTCGA * *** * * 52970908 TTTACAAAATTACCGTTTTACCCTTGG 1 TTTATAAAATTACCGAAATACCCTCGA * * * 52970935 TTTACAAAATTACCAAAATACCC-CTA 1 TTTATAAAATTACCGAAATACCCTCGA * * * * 52970961 GTTTGTAAAATTACCAAAATACCCTTGG 1 -TTTATAAAATTACCGAAATACCCTCGA * * ** * * 52970989 TTTGTAAAATTGCTAAAATACCCTTGG 1 TTTATAAAATTACCGAAATACCCTCGA * 52971016 TTTATAAAATTACCAAAATACCC-CTGA 1 TTTATAAAATTACCGAAATACCCTC-GA * * * * 52971043 TTTGTGAAATTATCGAAAAACCCTCGA 1 TTTATAAAATTACCGAAATACCCTCGA ** * 52971070 TTCGTAAAA-TACTGAAATACCCT 1 TTTATAAAATTACCGAAATACCCT 52971093 TGTAGGGTAG Statistics Matches: 413, Mismatches: 80, Indels: 32 0.79 0.15 0.06 Matches are distributed among these distances: 26 37 0.09 27 369 0.89 28 7 0.02 ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35 Consensus pattern (27 bp): TTTATAAAATTACCGAAATACCCTCGA Found at i:52970696 original size:80 final size:81 Alignment explanation
Indices: 52970556--52970748 Score: 262 Period size: 80 Copynumber: 2.4 Consensus size: 81 52970546 GAATACTTTA * * * 52970556 GTTTACTAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGGAATACCTTCGACTTGTAAAA 1 GTTTA-TAAAATTATCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAA 52970621 TTACCAAAGTACCCCCG 65 TTACCAAAGTACCCCCG ** 52970638 GTTTATAAAATTATCGAAATACTGTCGA-TTGTAAAATTACTGAAATACCCTCGACTTGTAAAAT 1 GTTTATAAAATTATCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAAT * 52970702 TATCAAAGTACCCCCG 66 TACCAAAGTACCCCCG * * * *** 52970718 ATTTACAGAATTATCGTTTTACCCTCGATTT 1 GTTTATAAAATTATCGAAATACCCTCGATTT 52970749 ACAGAATTAC Statistics Matches: 96, Mismatches: 14, Indels: 3 0.85 0.12 0.03 Matches are distributed among these distances: 80 69 0.72 81 22 0.23 82 5 0.05 ACGTcount: A:0.35, C:0.21, G:0.12, T:0.33 Consensus pattern (81 bp): GTTTATAAAATTATCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAAT TACCAAAGTACCCCCG Found at i:52970720 original size:53 final size:51 Alignment explanation
Indices: 52970562--52970720 Score: 156 Period size: 53 Copynumber: 3.0 Consensus size: 51 52970552 TTTAGTTTAC ** * 52970562 TAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGGAATACCTTCGACTTG 1 TAAAATTA-CGAAATACCCTCGATTTGTAAAATTA-TCAAATACCCTCGA-TTG * * * * ** 52970616 TAAAATTACCAAAGTACCCCCGGTTTATAAAATTATCGAAATACTGTCGATTG 1 TAAAATTACGAAA-TACCCTCGATTTGTAAAATTATC-AAATACCCTCGATTG * * 52970669 TAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCCCCGATT 1 TAAAATTAC-GAAATACCCTCGATTTGTAAAATTATCAAA-TACCCTCGATT 52970721 TACAGAATTA Statistics Matches: 85, Mismatches: 16, Indels: 9 0.77 0.15 0.08 Matches are distributed among these distances: 52 3 0.04 53 44 0.52 54 38 0.45 ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30 Consensus pattern (51 bp): TAAAATTACGAAATACCCTCGATTTGTAAAATTATCAAATACCCTCGATTG Found at i:52970801 original size:81 final size:81 Alignment explanation
Indices: 52970710--52970948 Score: 334 Period size: 81 Copynumber: 3.0 Consensus size: 81 52970700 ATTATCAAAG * * * * 52970710 TACCCCCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATT 1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATT * * 52970775 TATAGAATTACCGTTT 66 TACAAAATTACCGTTT * * * * 52970791 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATT 1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATT 52970856 TACAAAATTACCGTTT 66 TACAAAATTACCGTTT * * * *** 52970872 TACCCTCGATTTACAGAATTACCATTTTACCCTTGGTTTACAAAATTACCGTTTTACCCTTGGTT 1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATT 52970937 TACAAAATTACC 66 TACAAAATTACC 52970949 AAAATACCCC Statistics Matches: 140, Mismatches: 18, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 81 140 1.00 ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39 Consensus pattern (81 bp): TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATT TACAAAATTACCGTTT Found at i:52970949 original size:54 final size:54 Alignment explanation
Indices: 52970710--52970948 Score: 325 Period size: 54 Copynumber: 4.4 Consensus size: 54 52970700 ATTATCAAAG * * * 52970710 TACCCCCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCATTT 1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT * * * * 52970764 TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT 1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT * * * 52970818 TACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTACAAAATTACCGTTT 1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT * * * * 52970872 TACCCTCGATTTACAGAATTACCATTTTACCCTTGGTTTACAAAATTACCGTTT 1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT * * * 52970926 TACCCTTGGTTTACAAAATTACC 1 TACCCTCGATTTACAGAATTACC 52970949 AAAATACCCC Statistics Matches: 167, Mismatches: 18, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 54 167 1.00 ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39 Consensus pattern (54 bp): TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT Found at i:52970957 original size:81 final size:81 Alignment explanation
Indices: 52970683--52970957 Score: 280 Period size: 81 Copynumber: 3.4 Consensus size: 81 52970673 ATTACTGAAA * ** * * * * * 52970683 TACCCTCGACTTGTAAAATTATCAAAGTACCCCCGATTTACAGAATTATCGTTTTACCCTCGATT 1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCCTCGATT * 52970748 TACAGAATTACCATTT 66 TACAAAATTACCATTT * * * **** * 52970764 TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT 1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCCTCGATT * * * * 52970829 TATAGAATTATCGTTT 66 TACAAAATTACCATTT **** * * 52970845 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTTGGTT 1 TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCCTCGATT * 52970910 TACAAAATTACCGTTT 66 TACAAAATTACCATTT * * 52970926 TACCCTTGGTTTACAAAATTACCAAAATACCC 1 TACCCTCGATTTACAAAATTACCAAAATACCC 52970958 CTAGTTTGTA Statistics Matches: 163, Mismatches: 31, Indels: 0 0.84 0.16 0.00 Matches are distributed among these distances: 81 163 1.00 ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37 Consensus pattern (81 bp): TACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTACAGAATTACCATTTTACCCTCGATT TACAAAATTACCATTT Found at i:52971112 original size:27 final size:27 Alignment explanation
Indices: 52971083--52971351 Score: 405 Period size: 27 Copynumber: 10.0 Consensus size: 27 52971073 GTAAAATACT * * 52971083 GAAATACCCTTGTAGGGTAGAATTACT 1 GAAATACCCCTGTAGGGTAGAATTACC 52971110 GAAATACCCCTGTAGGGTAGAATTACC 1 GAAATACCCCTGTAGGGTAGAATTACC 52971137 GAAATA-CCCTGTAGGGTAGAATTACC 1 GAAATACCCCTGTAGGGTAGAATTACC * 52971163 GAAATACCCCTGTAGGGTAGAACTACC 1 GAAATACCCCTGTAGGGTAGAATTACC * 52971190 GAAATACCCCTGTAGGGTAGAACTACC 1 GAAATACCCCTGTAGGGTAGAATTACC * 52971217 GAAATACCCCTGTAGGGTAGAATTACT 1 GAAATACCCCTGTAGGGTAGAATTACC * * 52971244 GAAATACCACTGTAGGGTAAAATTACC 1 GAAATACCCCTGTAGGGTAGAATTACC * * 52971271 GAAATACCCCTATAGGGTAGAATTACT 1 GAAATACCCCTGTAGGGTAGAATTACC * 52971298 GAAATACCCCTGTAGGGTAGAATTATC 1 GAAATACCCCTGTAGGGTAGAATTACC * * * * 52971325 GAGATACCCTTGTGGGGTAAAATTACC 1 GAAATACCCCTGTAGGGTAGAATTACC 52971352 ATTTTGCCCC Statistics Matches: 221, Mismatches: 20, Indels: 2 0.91 0.08 0.01 Matches are distributed among these distances: 26 26 0.12 27 195 0.88 ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24 Consensus pattern (27 bp): GAAATACCCCTGTAGGGTAGAATTACC Found at i:52971630 original size:24 final size:25 Alignment explanation
Indices: 52971554--52971623 Score: 95 Period size: 25 Copynumber: 2.8 Consensus size: 25 52971544 AGGAAGTGCT * * * * 52971554 AAAAGGGCTATGCCCTAGTTTACCG 1 AAAAGGGCTTTGCCCCAGTTTATCA 52971579 AAAAGGGCTTTGCCCCAGTTTATCA 1 AAAAGGGCTTTGCCCCAGTTTATCA * 52971604 AAAAGGGTTTTGCCCCAGTT 1 AAAAGGGCTTTGCCCCAGTT 52971624 ATTAAAAGCG Statistics Matches: 40, Mismatches: 5, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 25 40 1.00 ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27 Consensus pattern (25 bp): AAAAGGGCTTTGCCCCAGTTTATCA Found at i:52981717 original size:48 final size:47 Alignment explanation
Indices: 52981563--52981723 Score: 159 Period size: 46 Copynumber: 3.4 Consensus size: 47 52981553 GGTGGTATGT * * * 52981563 GAGCCAGTGTAAGACATGTCTTGGACATGCATCGG-C-C-AAATTATGA 1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGA-TAT-A * * * * * * 52981609 GAGCTAGTGTAAGACATTTCTGGGACATGCATCAGCATTGAGA-AGA 1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATA * 52981655 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGGGATATA 1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATA * * 52981702 CAAGCTAGTGTAAGACCTGTCT 1 -GAGCTAGTGTAAGACATGTCT 52981724 GGGATGTAAT Statistics Matches: 93, Mismatches: 17, Indels: 8 0.79 0.14 0.07 Matches are distributed among these distances: 46 69 0.74 47 3 0.03 48 19 0.20 49 2 0.02 ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24 Consensus pattern (47 bp): GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATA Found at i:52983160 original size:13 final size:13 Alignment explanation
Indices: 52983142--52983170 Score: 58 Period size: 13 Copynumber: 2.2 Consensus size: 13 52983132 ATATTACTTG 52983142 TATTATGATATTT 1 TATTATGATATTT 52983155 TATTATGATATTT 1 TATTATGATATTT 52983168 TAT 1 TAT 52983171 AATAATATTG Statistics Matches: 16, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 13 16 1.00 ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62 Consensus pattern (13 bp): TATTATGATATTT Found at i:52992031 original size:42 final size:42 Alignment explanation
Indices: 52991926--52992080 Score: 138 Period size: 44 Copynumber: 3.7 Consensus size: 42 52991916 AGCTCGTACA * * * * 52991926 ATGCCAACGTCCCAG-ATGGTCTTACATGTAATCAAATATCA 1 ATGCCAATGTCCCAGAATGGTCTTACACGAAATCAAATATCG * * * * 52991967 ATACCACTGTCCTA-AATAGGTCTTACACGAAATCATATA-CG 1 ATGCCAATGTCCCAGAAT-GGTCTTACACGAAATCAAATATCG * * 52992008 ATGCCAATGTCCCAGACATGGTCTTACACATAAATCACAA-ATTG 1 ATGCCAATGTCCCAGA-ATGGTCTTACAC-GAAATCA-AATATCG * 52992052 ATGCCAATGTCCCAAACATGGTCTTACAC 1 ATGCCAATGTCCCAGA-ATGGTCTTACAC 52992081 AATAACACAT Statistics Matches: 92, Mismatches: 15, Indels: 11 0.78 0.13 0.09 Matches are distributed among these distances: 41 24 0.26 42 29 0.32 43 9 0.10 44 30 0.33 ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26 Consensus pattern (42 bp): ATGCCAATGTCCCAGAATGGTCTTACACGAAATCAAATATCG Found at i:52995935 original size:17 final size:19 Alignment explanation
Indices: 52995893--52995936 Score: 56 Period size: 19 Copynumber: 2.4 Consensus size: 19 52995883 ATGAAATTTT * 52995893 AATTAGTATTATGAGATAA 1 AATTATTATTATGAGATAA * 52995912 AATTATTATTATTAGA-AA 1 AATTATTATTATGAGATAA 52995930 AA-TATTA 1 AATTATTA 52995937 CTGTATGTAT Statistics Matches: 23, Mismatches: 2, Indels: 2 0.85 0.07 0.07 Matches are distributed among these distances: 17 5 0.22 18 4 0.17 19 14 0.61 ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41 Consensus pattern (19 bp): AATTATTATTATGAGATAA Found at i:52997761 original size:28 final size:28 Alignment explanation
Indices: 52997729--52997797 Score: 122 Period size: 28 Copynumber: 2.5 Consensus size: 28 52997719 GCGTAGATCA 52997729 CGAAATTACCCCTAAAGAGCAAAATTAC 1 CGAAATTACCCCTAAAGAGCAAAATTAC 52997757 CGAAATTACCCCTAAAGAGCAAAATTAC 1 CGAAATTACCCCTAAAGAGCAAAATTAC * 52997785 CGATA-TACCCCTA 1 CGAAATTACCCCTA 52997798 GGGTTTTAAG Statistics Matches: 40, Mismatches: 1, Indels: 1 0.95 0.02 0.02 Matches are distributed among these distances: 27 8 0.20 28 32 0.80 ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19 Consensus pattern (28 bp): CGAAATTACCCCTAAAGAGCAAAATTAC Found at i:53000101 original size:30 final size:28 Alignment explanation
Indices: 53000065--53000120 Score: 76 Period size: 30 Copynumber: 1.9 Consensus size: 28 53000055 AAGCGAAAAA * * 53000065 GAAAAAGAGTGTGTGCAAGAAAGTAAAGTT 1 GAAAAAGAGAGTGAGCAA-AAAG-AAAGTT 53000095 GAAAAAGAGAGTGAGCAAAAAGAAAG 1 GAAAAAGAGAGTGAGCAAAAAGAAAG 53000121 CGTGGAAGAA Statistics Matches: 24, Mismatches: 2, Indels: 2 0.86 0.07 0.07 Matches are distributed among these distances: 28 4 0.17 29 4 0.17 30 16 0.67 ACGTcount: A:0.54, C:0.04, G:0.30, T:0.12 Consensus pattern (28 bp): GAAAAAGAGAGTGAGCAAAAAGAAAGTT Found at i:53005837 original size:9 final size:9 Alignment explanation
Indices: 53005808--53005866 Score: 82 Period size: 9 Copynumber: 6.4 Consensus size: 9 53005798 ATTCATTAAC 53005808 AAACACATT 1 AAACACATT * 53005817 AAAACAAATT 1 -AAACACATT * 53005827 AAACACTTT 1 AAACACATT * 53005836 AAGCACATT 1 AAACACATT 53005845 AAACACATT 1 AAACACATT 53005854 AAACACATT 1 AAACACATT 53005863 AAAC 1 AAAC 53005867 TTAATTAACT Statistics Matches: 43, Mismatches: 6, Indels: 1 0.86 0.12 0.02 Matches are distributed among these distances: 9 35 0.81 10 8 0.19 ACGTcount: A:0.56, C:0.20, G:0.02, T:0.22 Consensus pattern (9 bp): AAACACATT Found at i:53005958 original size:34 final size:34 Alignment explanation
Indices: 53005911--53006009 Score: 108 Period size: 37 Copynumber: 2.8 Consensus size: 34 53005901 TAACAATAAA * * 53005911 TTATTCCAACAACTAAATTAACTAAGATAAGCAT 1 TTATTCCAGCAACTAAATTAACTAAAATAAGCAT * * * * 53005945 TTATTCTAGCAACTCAATTAATAACTAAAATGAGTAT 1 TTATTCCAGCAACT-AA--ATTAACTAAAATAAGCAT * 53005982 TTATTCCAGCAACTTAATTAACTAAAAT 1 TTATTCCAGCAACTAAATTAACTAAAAT 53006010 GAGTTTAATT Statistics Matches: 53, Mismatches: 9, Indels: 6 0.78 0.13 0.09 Matches are distributed among these distances: 34 23 0.43 35 2 0.04 36 1 0.02 37 27 0.51 ACGTcount: A:0.44, C:0.16, G:0.06, T:0.33 Consensus pattern (34 bp): TTATTCCAGCAACTAAATTAACTAAAATAAGCAT Found at i:53006010 original size:34 final size:34 Alignment explanation
Indices: 53005911--53006013 Score: 116 Period size: 34 Copynumber: 2.9 Consensus size: 34 53005901 TAACAATAAA * * * * 53005911 TTATTCCAACAACTAAATTAACTAAGATAAGCAT 1 TTATTCCAGCAACTAAATTAACTAAAATGAGTAT * * 53005945 TTATTCTAGCAACTCAATTAATAACTAAAATGAGTAT 1 TTATTCCAGCAACT-AA--ATTAACTAAAATGAGTAT * 53005982 TTATTCCAGCAACTTAATTAACTAAAATGAGT 1 TTATTCCAGCAACTAAATTAACTAAAATGAGT 53006014 TTAATTAAAA Statistics Matches: 57, Mismatches: 9, Indels: 6 0.79 0.12 0.08 Matches are distributed among these distances: 34 27 0.47 35 2 0.04 36 1 0.02 37 27 0.47 ACGTcount: A:0.44, C:0.16, G:0.08, T:0.33 Consensus pattern (34 bp): TTATTCCAGCAACTAAATTAACTAAAATGAGTAT Found at i:53007265 original size:23 final size:23 Alignment explanation
Indices: 53007237--53007280 Score: 88 Period size: 23 Copynumber: 1.9 Consensus size: 23 53007227 TTAGTAGATA 53007237 AACACTTCATATCAATATGTACG 1 AACACTTCATATCAATATGTACG 53007260 AACACTTCATATCAATATGTA 1 AACACTTCATATCAATATGTA 53007281 TAATGAAATC Statistics Matches: 21, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 23 21 1.00 ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32 Consensus pattern (23 bp): AACACTTCATATCAATATGTACG Found at i:53008936 original size:10 final size:10 Alignment explanation
Indices: 53008921--53008960 Score: 71 Period size: 10 Copynumber: 3.9 Consensus size: 10 53008911 TCACATTCAC 53008921 GAATTTTTTT 1 GAATTTTTTT 53008931 GAATTTTTTT 1 GAATTTTTTT 53008941 GAATTTTTTT 1 GAATTTTTTT 53008951 GAATTATTTT 1 GAATT-TTTT 53008961 CAAATAATTA Statistics Matches: 29, Mismatches: 0, Indels: 1 0.97 0.00 0.03 Matches are distributed among these distances: 10 25 0.86 11 4 0.14 ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68 Consensus pattern (10 bp): GAATTTTTTT Found at i:53010027 original size:9 final size:9 Alignment explanation
Indices: 53009998--53010038 Score: 55 Period size: 9 Copynumber: 4.4 Consensus size: 9 53009988 ATTCATTAAC 53009998 AAACACATT 1 AAACACATT * 53010007 AAAACAAATT 1 -AAACACATT * 53010017 AAACACTTT 1 AAACACATT 53010026 AAACACATT 1 AAACACATT 53010035 AAAC 1 AAAC 53010039 TTAATTAACT Statistics Matches: 27, Mismatches: 4, Indels: 1 0.84 0.12 0.03 Matches are distributed among these distances: 9 19 0.70 10 8 0.30 ACGTcount: A:0.59, C:0.20, G:0.00, T:0.22 Consensus pattern (9 bp): AAACACATT Found at i:53010131 original size:20 final size:20 Alignment explanation
Indices: 53010106--53010143 Score: 58 Period size: 20 Copynumber: 1.9 Consensus size: 20 53010096 GTTTATTCGC * 53010106 GATTTTCAATATTTTGTAAA 1 GATTTTCAAAATTTTGTAAA * 53010126 GATTTTTAAAATTTTGTA 1 GATTTTCAAAATTTTGTA 53010144 TTTGGATGTG 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:0.34, C:0.03, G:0.11, T:0.53 Consensus pattern (20 bp): GATTTTCAAAATTTTGTAAA Found at i:53011833 original size:28 final size:27 Alignment explanation
Indices: 53011774--53011866 Score: 143 Period size: 27 Copynumber: 3.4 Consensus size: 27 53011764 TAGAACACGA * 53011774 AATTACCCTTAAAGAGCAAAATTACCG 1 AATTACCCCTAAAGAGCAAAATTACCG 53011801 AATTACCCCTAAAGAGCAAAATTACCG 1 AATTACCCCTAAAGAGCAAAATTACCG * 53011828 AAATTACCCCTAAGGAGCAAAATTACC- 1 -AATTACCCCTAAAGAGCAAAATTACCG 53011855 AATATACCCCTA 1 AAT-TACCCCTA 53011867 GGGTTTAAAT Statistics Matches: 62, Mismatches: 2, Indels: 4 0.91 0.03 0.06 Matches are distributed among these distances: 26 3 0.05 27 34 0.55 28 25 0.40 ACGTcount: A:0.44, C:0.26, G:0.10, T:0.20 Consensus pattern (27 bp): AATTACCCCTAAAGAGCAAAATTACCG Found at i:53013059 original size:34 final size:34 Alignment explanation
Indices: 53013006--53013104 Score: 117 Period size: 37 Copynumber: 2.8 Consensus size: 34 53012996 TAACAATACA * * 53013006 TTATTCCAGCAACTAAATTAACTAAGATAAGCAT 1 TTATTCCAGCAACTCAATTAACTAAAATAAGCAT * * * * 53013040 TTATTCTAGTAACTCAATTAATAACTAAAATGAGTAT 1 TTATTCCAGCAACTCAA-T--TAACTAAAATAAGCAT 53013077 TTATTCCAGCAACTCAATTAACTAAAAT 1 TTATTCCAGCAACTCAATTAACTAAAAT 53013105 GAGTTTAATT Statistics Matches: 54, Mismatches: 8, Indels: 6 0.79 0.12 0.09 Matches are distributed among these distances: 34 24 0.44 35 1 0.02 36 1 0.02 37 28 0.52 ACGTcount: A:0.43, C:0.16, G:0.07, T:0.33 Consensus pattern (34 bp): TTATTCCAGCAACTCAATTAACTAAAATAAGCAT Found at i:53013105 original size:34 final size:34 Alignment explanation
Indices: 53013006--53013108 Score: 125 Period size: 34 Copynumber: 2.9 Consensus size: 34 53012996 TAACAATACA * * * * 53013006 TTATTCCAGCAACTAAATTAACTAAGATAAGCAT 1 TTATTCCAGCAACTCAATTAACTAAAATGAGTAT * * 53013040 TTATTCTAGTAACTCAATTAATAACTAAAATGAGTAT 1 TTATTCCAGCAACTCAA-T--TAACTAAAATGAGTAT 53013077 TTATTCCAGCAACTCAATTAACTAAAATGAGT 1 TTATTCCAGCAACTCAATTAACTAAAATGAGT 53013109 TTAATTAAAT Statistics Matches: 58, Mismatches: 8, Indels: 6 0.81 0.11 0.08 Matches are distributed among these distances: 34 28 0.48 35 1 0.02 36 1 0.02 37 28 0.48 ACGTcount: A:0.43, C:0.16, G:0.09, T:0.33 Consensus pattern (34 bp): TTATTCCAGCAACTCAATTAACTAAAATGAGTAT Found at i:53021497 original size:50 final size:49 Alignment explanation
Indices: 53021374--53021603 Score: 221 Period size: 50 Copynumber: 4.6 Consensus size: 49 53021364 CTGATATGCA * * * * * 53021374 TAGTAGCCTGCACTTAGTACTACACATGCGACTAACAATCCGGTACACG 1 TAGTAGCCTGCACTTAGTACTACACACGTGACTAACCATCTGATACACG * * 53021423 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTGATACATG 1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTAACCATCTGATACACG * * * * 53021473 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCAT-TGAGTACGCA 1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTAA-CCATCTGA-TACACG * ** * * * 53021524 TAGTAGCCTGCACTTAGTACTACACATGCAACTTAA-TAGTATGGTACACG 1 TAGTAGCCTGCACTTAGTACTACACACGTGAC-TAACCA-TCTGATACACG * * 53021574 TAGTAGCTTGCACTGAGTACTACACACGTG 1 TAGTAGCCTGCACTTAGTACTACACACGTG 53021604 TACTCACAAT Statistics Matches: 148, Mismatches: 27, Indels: 11 0.80 0.15 0.06 Matches are distributed among these distances: 49 30 0.20 50 80 0.54 51 38 0.26 ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26 Consensus pattern (49 bp): TAGTAGCCTGCACTTAGTACTACACACGTGACTAACCATCTGATACACG Found at i:53028418 original size:49 final size:49 Alignment explanation
Indices: 53028345--53028577 Score: 217 Period size: 49 Copynumber: 4.7 Consensus size: 49 53028335 CGAAGCTATC * * 53028345 TGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAAT 1 TGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAAT * * * * 53028393 CCGATACACGTAGTAGCCTGCACTTAGTACTACACACATG-AACTCACCATT 1 -TGATACACGTAGTAGCCTGCACTTAGTACT--ACACATGCGACTCAACAAT * * * 53028444 TGATACACGTAGTAGCCTACA-TTAGTACTACACACGTGA-TCGAAGTC-AT 1 TGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTC-AA--CAAT * * * * 53028493 TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGT 1 TGA-TACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAAT * * 53028543 ATGGTACACGTAGTA-CCTTCACTTAGTACTACACA 1 -TGATACACGTAGTAGCCTGCACTTAGTACTACACA 53028578 CGTGTACTCA Statistics Matches: 149, Mismatches: 23, Indels: 24 0.76 0.12 0.12 Matches are distributed among these distances: 47 8 0.05 48 2 0.01 49 59 0.40 50 47 0.32 51 32 0.21 52 1 0.01 ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25 Consensus pattern (49 bp): TGATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAAT Found at i:53034009 original size:71 final size:71 Alignment explanation
Indices: 53033925--53034088 Score: 328 Period size: 71 Copynumber: 2.3 Consensus size: 71 53033915 CGATTTGTCT 53033925 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT 1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT 53033990 CTTTCA 66 CTTTCA 53033996 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT 1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT 53034061 CTTTCA 66 CTTTCA 53034067 CGTAGCTCTCTTGTCTACATGG 1 CGTAGCTCTCTTGTCTACATGG 53034089 GATACATCTC Statistics Matches: 93, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 71 93 1.00 ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35 Consensus pattern (71 bp): CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT CTTTCA Found at i:53034126 original size:71 final size:70 Alignment explanation
Indices: 53033925--53034122 Score: 258 Period size: 71 Copynumber: 2.8 Consensus size: 70 53033915 CGATTTGTCT * * * * 53033925 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT 1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT 53033990 CTTTCA 65 CTTTCA * * * * 53033996 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT 1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT 53034061 CTTTCA 65 CTTTCA * * 53034067 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC 1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC 53034123 TACAGGGTGT Statistics Matches: 120, Mismatches: 6, Indels: 5 0.92 0.05 0.04 Matches are distributed among these distances: 68 22 0.18 69 1 0.01 70 1 0.01 71 96 0.80 ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34 Consensus pattern (70 bp): CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC TTTCA Found at i:53038733 original size:40 final size:40 Alignment explanation
Indices: 53038688--53038854 Score: 185 Period size: 40 Copynumber: 4.2 Consensus size: 40 53038678 CGGAATATAA 53038688 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC 1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC * * * * 53038728 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC 1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC ** * * 53038768 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC 1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC ** * * * * 53038808 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC 1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC 53038847 CCGGATAT 1 CCGGATAT 53038855 CATTCAATTT Statistics Matches: 107, Mismatches: 19, Indels: 3 0.83 0.15 0.02 Matches are distributed among these distances: 39 14 0.13 40 93 0.87 ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26 Consensus pattern (40 bp): CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC Found at i:53044852 original size:30 final size:29 Alignment explanation
Indices: 53044758--53044859 Score: 109 Period size: 28 Copynumber: 3.5 Consensus size: 29 53044748 TATAGTGAAT * * * 53044758 CCGCACACTTAGTGCTATATATTTTCAGC 1 CCGCACACTTAGTGCTATAAATTTTAAAC * * 53044787 TCGCACACTTAGTGCTATAGAA--TCAAAC 1 CCGCACACTTAGTGCTATA-AATTTTAAAC * * 53044815 TCGCACACTTAGTGCTGTACAATTTTAAAC 1 CCGCACACTTAGTGCTATA-AATTTTAAAC 53044845 CCGCACACTTAGTGC 1 CCGCACACTTAGTGC 53044860 CAATCTTGTC Statistics Matches: 61, Mismatches: 9, Indels: 5 0.81 0.12 0.07 Matches are distributed among these distances: 28 23 0.38 29 18 0.30 30 20 0.33 ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29 Consensus pattern (29 bp): CCGCACACTTAGTGCTATAAATTTTAAAC Found at i:53052007 original size:28 final size:29 Alignment explanation
Indices: 53051937--53052011 Score: 82 Period size: 28 Copynumber: 2.6 Consensus size: 29 53051927 ATACTCGATT * 53051937 TCGCACACTTAGTGCCATGCGATTTAGGC 1 TCGCACACTTAGTGCCATGCGATTGAGGC * ** * 53051966 CCGCACACACAGTGCCATGC-CTTCGA-GC 1 TCGCACACTTAGTGCCATGCGATT-GAGGC 53051994 TCGCACACTTAGTGCCAT 1 TCGCACACTTAGTGCCAT 53052012 ATATTTCCAG Statistics Matches: 37, Mismatches: 8, Indels: 3 0.77 0.17 0.06 Matches are distributed among these distances: 28 19 0.51 29 18 0.49 ACGTcount: A:0.21, C:0.35, G:0.21, T:0.23 Consensus pattern (29 bp): TCGCACACTTAGTGCCATGCGATTGAGGC Found at i:53052032 original size:29 final size:29 Alignment explanation
Indices: 53051995--53052068 Score: 139 Period size: 29 Copynumber: 2.6 Consensus size: 29 53051985 CCTTCGAGCT 53051995 CGCACACTTAGTGCCATATATTTCCAGCA 1 CGCACACTTAGTGCCATATATTTCCAGCA * 53052024 TGCACACTTAGTGCCATATATTTCCAGCA 1 CGCACACTTAGTGCCATATATTTCCAGCA 53052053 CGCACACTTAGTGCCA 1 CGCACACTTAGTGCCA 53052069 ATCTCGTCAC Statistics Matches: 43, Mismatches: 2, Indels: 0 0.96 0.04 0.00 Matches are distributed among these distances: 29 43 1.00 ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27 Consensus pattern (29 bp): CGCACACTTAGTGCCATATATTTCCAGCA Found at i:53058089 original size:40 final size:40 Alignment explanation
Indices: 53058007--53058225 Score: 266 Period size: 40 Copynumber: 5.5 Consensus size: 40 53057997 ACCCAAGTAT * ** * * 53058007 CTTCGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC 1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC * * 53058044 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC 1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC * * 53058084 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC 1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC * 53058124 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC 1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC * * * * 53058164 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC 1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC * 53058204 CTTCGGGACTTAGCCCGGATAT 1 CTTCGGGTCTTAGCCCGGATAT 53058226 CATTCGAATA Statistics Matches: 155, Mismatches: 22, Indels: 7 0.84 0.12 0.04 Matches are distributed among these distances: 37 7 0.05 38 4 0.03 39 16 0.10 40 127 0.82 41 1 0.01 ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25 Consensus pattern (40 bp): CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC Found at i:53066229 original size:40 final size:40 Alignment explanation
Indices: 53066182--53066365 Score: 235 Period size: 40 Copynumber: 4.6 Consensus size: 40 53066172 GTCGCACAAG * * 53066182 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT 1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT * * 53066222 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT 1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT * * * 53066262 GCCTTCAGGTCTTAGCCCGGATATAG-CAACTCGTACAAAT 1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT * * * * * 53066302 GCCTTCGGATCTTAGTCTGGATATAGTCACTAGCATAAAA 1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT * 53066342 GCCTTCGGGACTTAGCCCGGATAT 1 GCCTTCGGGTCTTAGCCCGGATAT 53066366 CATTCGAATA Statistics Matches: 121, Mismatches: 21, Indels: 4 0.83 0.14 0.03 Matches are distributed among these distances: 39 1 0.01 40 119 0.98 41 1 0.01 ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26 Consensus pattern (40 bp): GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT Found at i:53071164 original size:40 final size:40 Alignment explanation
Indices: 53071119--53071248 Score: 172 Period size: 40 Copynumber: 3.2 Consensus size: 40 53071109 CGGAATATAA 53071119 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC 1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC * ** * * 53071159 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC 1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC * * * 53071199 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC 1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC 53071239 CCGGATATAA 1 CCGGATATAA 53071249 TTTCCAGCAT Statistics Matches: 75, Mismatches: 14, Indels: 2 0.82 0.15 0.02 Matches are distributed among these distances: 40 74 0.99 41 1 0.01 ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25 Consensus pattern (40 bp): CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC Found at i:53071263 original size:40 final size:39 Alignment explanation
Indices: 53071135--53071285 Score: 144 Period size: 40 Copynumber: 3.8 Consensus size: 39 53071125 ATAACCATGT * * * 53071135 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC 1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C ** * 53071175 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT 1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C * ** 53071215 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC 1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC * * * 53071254 AGCATAATTGTCTTCGGG-CATAGCCCGGATAT 1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT 53071286 CATTCAATTT Statistics Matches: 93, Mismatches: 15, Indels: 7 0.81 0.13 0.06 Matches are distributed among these distances: 39 14 0.15 40 77 0.83 41 2 0.02 ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26 Consensus pattern (39 bp): GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC Found at i:53071269 original size:80 final size:79 Alignment explanation
Indices: 53071119--53071285 Score: 196 Period size: 80 Copynumber: 2.1 Consensus size: 79 53071109 CGGAATATAA * 53071119 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG 1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG * 53071184 CCTTCGGGTCTTAGC 66 CCTTCGGG-CATAGC * * * ** * 53071199 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA 1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA * 53071261 TTGTCTTCGGGCATAGC 64 -TGCCTTCGGGCATAGC 53071278 CCGGATAT 1 CCGGATAT 53071286 CATTCAATTT Statistics Matches: 75, Mismatches: 9, Indels: 7 0.82 0.10 0.08 Matches are distributed among these distances: 79 16 0.21 80 58 0.77 81 1 0.01 ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26 Consensus pattern (79 bp): CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG CCTTCGGGCATAGC Found at i:53073393 original size:21 final size:21 Alignment explanation
Indices: 53073369--53073408 Score: 62 Period size: 21 Copynumber: 1.9 Consensus size: 21 53073359 TGTTTCAGGG * 53073369 AAAAATTTTCTAAGTTTTCCC 1 AAAAATTTTCAAAGTTTTCCC * 53073390 AAAATTTTTCAAAGTTTTC 1 AAAAATTTTCAAAGTTTTC 53073409 AGTTTAGTCC Statistics Matches: 17, Mismatches: 2, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 21 17 1.00 ACGTcount: A:0.35, C:0.15, G:0.05, T:0.45 Consensus pattern (21 bp): AAAAATTTTCAAAGTTTTCCC Found at i:53092544 original size:17 final size:18 Alignment explanation
Indices: 53092522--53092558 Score: 58 Period size: 19 Copynumber: 2.1 Consensus size: 18 53092512 AAGAAATGAA 53092522 ATTGTAAA-TTGTGAGAT 1 ATTGTAAATTTGTGAGAT 53092539 ATTGTAAATTTTGTGAGAT 1 ATTGTAAA-TTTGTGAGAT 53092558 A 1 A 53092559 AGGTTAGAAT Statistics Matches: 18, Mismatches: 0, Indels: 2 0.90 0.00 0.10 Matches are distributed among these distances: 17 8 0.44 19 10 0.56 ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43 Consensus pattern (18 bp): ATTGTAAATTTGTGAGAT Found at i:53097233 original size:30 final size:30 Alignment explanation
Indices: 53097197--53097298 Score: 111 Period size: 28 Copynumber: 3.5 Consensus size: 30 53097187 GACAAGATTG * * 53097197 GCACTAAGTGTGCGGGTTTAAAATTGTACA 1 GCACTAAGTGTGCGGGTTTAAAATTATATA * * * 53097227 GCACTAAGTGTGCGCGTTT--GATTCTATA 1 GCACTAAGTGTGCGGGTTTAAAATTATATA * * * 53097255 GCACTAAGTGTGCGAGCTGAAAA-TATATA 1 GCACTAAGTGTGCGGGTTTAAAATTATATA 53097284 GCACTAAGTGTGCGG 1 GCACTAAGTGTGCGG 53097299 ATTCACTATA Statistics Matches: 60, Mismatches: 10, Indels: 5 0.80 0.13 0.07 Matches are distributed among these distances: 28 22 0.37 29 19 0.32 30 19 0.32 ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28 Consensus pattern (30 bp): GCACTAAGTGTGCGGGTTTAAAATTATATA Found at i:53097309 original size:29 final size:28 Alignment explanation
Indices: 53097226--53097301 Score: 75 Period size: 29 Copynumber: 2.7 Consensus size: 28 53097216 AAAATTGTAC * * 53097226 AGCACTAAGTGTGCGCGTTTGAT-TCTAT 1 AGCACTAAGTGTGCG-GATTGATATATAT * * 53097254 AGCACTAAGTGTGC-GAGCTGAAAATATAT 1 AGCACTAAGTGTGCGGA-TTG-ATATATAT 53097283 AGCACTAAGTGTGCGGATT 1 AGCACTAAGTGTGCGGATT 53097302 CACTATATGC Statistics Matches: 39, Mismatches: 5, Indels: 7 0.76 0.10 0.14 Matches are distributed among these distances: 26 1 0.03 27 2 0.05 28 15 0.38 29 19 0.49 30 2 0.05 ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29 Consensus pattern (28 bp): AGCACTAAGTGTGCGGATTGATATATAT Found at i:53104353 original size:30 final size:30 Alignment explanation
Indices: 53104317--53104417 Score: 109 Period size: 28 Copynumber: 3.5 Consensus size: 30 53104307 GACAAGATTG * * * 53104317 GCACTAAGTGTGCGGGTTTAAAATTGTACA 1 GCACTAAGTGTGCGAGTTTAAAATTATATA * * * 53104347 GCACTAAGTGCGCGAGTTT--GATTCTATA 1 GCACTAAGTGTGCGAGTTTAAAATTATATA * * 53104375 GCACTAAGTGTGCGAGCTGAAAA-TATATA 1 GCACTAAGTGTGCGAGTTTAAAATTATATA 53104404 GCACTAAGTGTGCG 1 GCACTAAGTGTGCG 53104418 GATTCACTAT Statistics Matches: 59, Mismatches: 10, Indels: 5 0.80 0.14 0.07 Matches are distributed among these distances: 28 22 0.37 29 19 0.32 30 18 0.31 ACGTcount: A:0.30, C:0.16, G:0.27, T:0.28 Consensus pattern (30 bp): GCACTAAGTGTGCGAGTTTAAAATTATATA Found at i:53109581 original size:28 final size:28 Alignment explanation
Indices: 53109516--53109616 Score: 114 Period size: 28 Copynumber: 3.5 Consensus size: 28 53109506 ATAGTGAATC * 53109516 CGCACACTTAGTGCTATATGTATTC-AACT 1 CGCACACTTAGTGCTATA--TAATCAAACT 53109545 CGCACACTTAGTGCTATATAATCAAACT 1 CGCACACTTAGTGCTATATAATCAAACT * * * * 53109573 CGCACACTTAGTGCTGTACAATTTTAAACC 1 CGCACACTTAGTGCTATATAA--TCAAACT 53109603 CGCACACTTAGTGC 1 CGCACACTTAGTGC 53109617 CAATCTTGTC Statistics Matches: 64, Mismatches: 5, Indels: 5 0.86 0.07 0.07 Matches are distributed among these distances: 27 4 0.06 28 23 0.36 29 18 0.28 30 19 0.30 ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30 Consensus pattern (28 bp): CGCACACTTAGTGCTATATAATCAAACT Found at i:53117515 original size:28 final size:28 Alignment explanation
Indices: 53117450--53117550 Score: 114 Period size: 28 Copynumber: 3.5 Consensus size: 28 53117440 ATAGTGAATC * 53117450 CGCACACTTAGTGCTATATGTATTC-AACT 1 CGCACACTTAGTGCTATA--TAATCAAACT 53117479 CGCACACTTAGTGCTATATAATCAAACT 1 CGCACACTTAGTGCTATATAATCAAACT * * * * 53117507 CGCACACTTAGTGCTGTACAATTTTAAACC 1 CGCACACTTAGTGCTATATAA--TCAAACT 53117537 CGCACACTTAGTGC 1 CGCACACTTAGTGC 53117551 CAATCTTGTC Statistics Matches: 64, Mismatches: 5, Indels: 5 0.86 0.07 0.07 Matches are distributed among these distances: 27 4 0.06 28 23 0.36 29 18 0.28 30 19 0.30 ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30 Consensus pattern (28 bp): CGCACACTTAGTGCTATATAATCAAACT Found at i:53123316 original size:7 final size:7 Alignment explanation
Indices: 53123304--53123328 Score: 50 Period size: 7 Copynumber: 3.6 Consensus size: 7 53123294 GTTGTCTTCT 53123304 TGTTTGA 1 TGTTTGA 53123311 TGTTTGA 1 TGTTTGA 53123318 TGTTTGA 1 TGTTTGA 53123325 TGTT 1 TGTT 53123329 GTGGTGATGA Statistics Matches: 18, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 7 18 1.00 ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60 Consensus pattern (7 bp): TGTTTGA Found at i:53124257 original size:27 final size:28 Alignment explanation
Indices: 53124201--53124270 Score: 115 Period size: 27 Copynumber: 2.5 Consensus size: 28 53124191 AAATTTGTAC 53124201 AGCACTAAGTGTGCGAGTTTGATTATAT 1 AGCACTAAGTGTGCGAGTTTGATTATAT * * 53124229 AGCACTAGGTGTGCGAG-TTGATTTTAT 1 AGCACTAAGTGTGCGAGTTTGATTATAT 53124256 AGCACTAAGTGTGCG 1 AGCACTAAGTGTGCG 53124271 GACTCACTAT Statistics Matches: 39, Mismatches: 3, Indels: 1 0.91 0.07 0.02 Matches are distributed among these distances: 27 23 0.59 28 16 0.41 ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33 Consensus pattern (28 bp): AGCACTAAGTGTGCGAGTTTGATTATAT Found at i:53126190 original size:40 final size:40 Alignment explanation
Indices: 53126135--53126344 Score: 305 Period size: 40 Copynumber: 5.2 Consensus size: 40 53126125 AACATTGGAA 53126135 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG 1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG 53126175 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG 1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG 53126215 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG 1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG * * * * 53126255 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC 1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG * * * * * * 53126294 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG 1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG * 53126335 CTATATCCGG 1 ATATATCCGG 53126345 TTAAATCCCG Statistics Matches: 151, Mismatches: 17, Indels: 4 0.88 0.10 0.02 Matches are distributed among these distances: 39 2 0.01 40 149 0.99 ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22 Consensus pattern (40 bp): ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG Found at i:53134645 original size:40 final size:40 Alignment explanation
Indices: 53134568--53134784 Score: 334 Period size: 40 Copynumber: 5.5 Consensus size: 40 53134558 AAACCAAGTC * * 53134568 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG 1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG * 53134607 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG 1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG 53134647 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG 1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG 53134687 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG 1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG * * * 53134727 CCTTCAGGG-CTTAGCCCGAAT-TAGTCACTAGCACAAATG 1 CCTTC-GGGACTTAGCCCGGATATAGTAACTCGCACAAATG 53134766 CCTTCGGGACTTAGCCCGG 1 CCTTCGGGACTTAGCCCGG 53134785 TTATCATCCG Statistics Matches: 166, Mismatches: 8, Indels: 8 0.91 0.04 0.04 Matches are distributed among these distances: 38 3 0.02 39 44 0.27 40 116 0.70 41 3 0.02 ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24 Consensus pattern (40 bp): CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG Found at i:53136634 original size:57 final size:57 Alignment explanation
Indices: 53136481--53136639 Score: 221 Period size: 57 Copynumber: 2.8 Consensus size: 57 53136471 ATTTTTCAGG * * * 53136481 TCATTTTCATTTTGGAG-AAAACCACATTCATGTCCAAATGATTTCATTTCTCCATTT 1 TCATTTTCATTTTGGAGAAAAACAAAATT-ATTTCCAAATGATTTCATTTCTCCATTT * * * * * 53136538 TCATTTTCATTTTGGAGAAAACCATAATAATTTCAAAATGTTTTCATTTCTCCATTT 1 TCATTTTCATTTTGGAGAAAAACAAAATTATTTCCAAATGATTTCATTTCTCCATTT * 53136595 TCATTTTCATTTTGGAGAAAAACAAAATTGTTTCCAAATGATTTC 1 TCATTTTCATTTTGGAGAAAAACAAAATTATTTCCAAATGATTTC 53136640 CCAGTTATCC Statistics Matches: 87, Mismatches: 14, Indels: 2 0.84 0.14 0.02 Matches are distributed among these distances: 57 81 0.93 58 6 0.07 ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43 Consensus pattern (57 bp): TCATTTTCATTTTGGAGAAAAACAAAATTATTTCCAAATGATTTCATTTCTCCATTT Found at i:53140200 original size:27 final size:27 Alignment explanation
Indices: 53140161--53140251 Score: 72 Period size: 27 Copynumber: 3.6 Consensus size: 27 53140151 TTAAATAAAC * * 53140161 TTAGGACATATTAAATAGCTGAACTAA 1 TTAGAACACATTAAATAGCTGAACTAA 53140188 TTAGAACACATTAAATA----AACT-- 1 TTAGAACACATTAAATAGCTGAACTAA * * * 53140209 TAAGATA-A-TTTAAATTGCTGAACTAA 1 TTAGA-ACACATTAAATAGCTGAACTAA 53140235 TTAGAACACATTAAATA 1 TTAGAACACATTAAATA 53140252 AACTAAGACA Statistics Matches: 47, Mismatches: 8, Indels: 18 0.64 0.11 0.25 Matches are distributed among these distances: 20 6 0.13 21 5 0.11 22 1 0.02 23 4 0.09 24 4 0.09 25 1 0.02 26 5 0.11 27 21 0.45 ACGTcount: A:0.48, C:0.11, G:0.10, T:0.31 Consensus pattern (27 bp): TTAGAACACATTAAATAGCTGAACTAA Found at i:53140209 original size:47 final size:46 Alignment explanation
Indices: 53140145--53140269 Score: 189 Period size: 47 Copynumber: 2.7 Consensus size: 46 53140135 TATTAACTAA * * 53140145 AACATATTAAATAAACTTAGGACATATTAAATAGCTGAACTAATTAG 1 AACACATTAAATAAACTTAAGACA-ATTAAATAGCTGAACTAATTAG * * 53140192 AACACATTAAATAAACTTAAGATAATTTAAATTGCTGAACTAATTAG 1 AACACATTAAATAAACTTAAGACAA-TTAAATAGCTGAACTAATTAG 53140239 AACACATTAAATAAAC-TAAGACAATTAAATA 1 AACACATTAAATAAACTTAAGACAATTAAATA 53140270 CTTAAACTAA Statistics Matches: 71, Mismatches: 6, Indels: 4 0.88 0.07 0.05 Matches are distributed among these distances: 45 6 0.08 46 8 0.11 47 57 0.80 ACGTcount: A:0.52, C:0.11, G:0.08, T:0.29 Consensus pattern (46 bp): AACACATTAAATAAACTTAAGACAATTAAATAGCTGAACTAATTAG Found at i:53143593 original size:49 final size:47 Alignment explanation
Indices: 53143476--53143937 Score: 644 Period size: 47 Copynumber: 9.7 Consensus size: 47 53143466 GATTTTACGC * * 53143476 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT 1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT 53143523 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATGGCCAATGT 1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT * 53143570 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT 1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT * * 53143619 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT 1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT 53143668 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATGGCCAATGT 1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT * 53143715 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT 1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT * 53143764 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGT 1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCA-ATGT * 53143813 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATAGCCAATGT 1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT * * * * * 53143860 GATGAATGTGAAGGTGTATATATGTGACAGGGCCGAGTGGCCAACGT 1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT * * * 53143907 GATGGATGTGAAAGTGTATAAATGTGATAAG 1 GATGAATGTGAAGGTGTATATATGTGATAAG 53143938 TCCCGAAGGG Statistics Matches: 381, Mismatches: 22, Indels: 24 0.89 0.05 0.06 Matches are distributed among these distances: 46 6 0.02 47 182 0.48 48 16 0.04 49 173 0.45 50 4 0.01 ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30 Consensus pattern (47 bp): GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT Found at i:53143600 original size:96 final size:95 Alignment explanation
Indices: 53143476--53143937 Score: 657 Period size: 96 Copynumber: 4.8 Consensus size: 95 53143466 GATTTTACGC 53143476 GATGAATGTGAA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT 1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT 53143540 ATATATGTGATAAGG-CTGAATGGCCAATGT 66 ATATATGTGATAAGGCCT-AATGGCCAATGT 53143570 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG 1 GATGAATGTG-AAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G * * 53143635 TATATATATGTGATAAGGCCTAATGGCCGATGT 63 TGTATATATGTGATAAGGCCTAATGGCCAATGT * 53143668 GATGAATGTGAAG-GTGTATATATGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAGTG 1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTG-AAG-G * 53143731 TGTATATATGTGATAAGGCCTAATGGCCGATGT 63 TGTATATATGTGATAAGGCCTAATGGCCAATGT * * 53143764 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG 1 GATGAATGTG-AAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG * 53143829 TATATATGTGATAAGG-CTGAATAGCCAATGT 65 TATATATGTGATAAGGCCT-AATGGCCAATGT * * * * * * * * 53143860 GATGAATGTGAAG-GTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT 1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT * 53143924 ATAAATGTGATAAG 66 ATATATGTGATAAG 53143938 TCCCGAAGGG Statistics Matches: 338, Mismatches: 20, Indels: 20 0.89 0.05 0.05 Matches are distributed among these distances: 94 64 0.19 95 9 0.03 96 172 0.51 97 12 0.04 98 77 0.23 99 4 0.01 ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30 Consensus pattern (95 bp): GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT ATATATGTGATAAGGCCTAATGGCCAATGT Found at i:53143658 original size:145 final size:145 Alignment explanation
Indices: 53143476--53143937 Score: 792 Period size: 145 Copynumber: 3.2 Consensus size: 145 53143466 GATTTTACGC * 53143476 GATGAATGTG-AA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG 1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG 53143539 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG 66 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG 53143604 CCTAATGGCCGATGT 131 CCTAATGGCCGATGT 53143619 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG 1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG 53143684 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG 66 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG 53143749 CCTAATGGCCGATGT 131 CCTAATGGCCGATGT * 53143764 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG 1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG * * * 53143829 TATATATGTGATAAGGCTGAATAGCCAATGTGATGAATGTG-AAG-GTGTATATATGTGACAGGG 66 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG * * * * 53143892 CCGAGTGGCCAACGT 131 CCTAATGGCCGATGT * 53143907 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG 1 GATGAATGTGAAAGTGTATATATATGTGATAAG 53143938 TCCCGAAGGG Statistics Matches: 307, Mismatches: 10, Indels: 6 0.95 0.03 0.02 Matches are distributed among these distances: 141 10 0.03 142 1 0.00 143 57 0.19 144 5 0.02 145 234 0.76 ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30 Consensus pattern (145 bp): GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG CCTAATGGCCGATGT Found at i:53145931 original size:42 final size:41 Alignment explanation
Indices: 53145867--53146078 Score: 214 Period size: 40 Copynumber: 5.2 Consensus size: 41 53145857 CTCGACGATG * * * 53145867 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT 1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTG-TATAT * * * * * 53145909 ATCCGGGTTAAGTCCCGTAGAGCATTCGTGCTGGTGT-TAC 1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT * 53145949 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTG-ATAT 1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT * * 53145989 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTG-ATGT 1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT * * ** * * * 53146029 ATCCGGACCAGGTTCCGAAGAGCAGTCATGCTGGTGATATGT 1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTG-TATAT * 53146071 ATTCGGGC 1 ATCCGGGC 53146079 CTTCGAGCCT Statistics Matches: 147, Mismatches: 20, Indels: 6 0.85 0.12 0.03 Matches are distributed among these distances: 40 103 0.70 41 1 0.01 42 43 0.29 ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25 Consensus pattern (41 bp): ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT Found at i:53146109 original size:43 final size:43 Alignment explanation
Indices: 53146061--53146323 Score: 456 Period size: 43 Copynumber: 6.1 Consensus size: 43 53146051 CAGTCATGCT 53146061 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC 1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC * 53146104 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC 1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC * 53146147 -GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC 1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC 53146189 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC 1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC 53146232 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC 1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC * * * ** 53146275 GGTGATATGTATTCGGGTCTTCGTGCTTAGCAGGCTTAATGCC 1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC 53146318 GGTGAT 1 GGTGAT 53146324 TCGAGCAAGG Statistics Matches: 212, Mismatches: 7, Indels: 2 0.96 0.03 0.01 Matches are distributed among these distances: 42 42 0.20 43 170 0.80 ACGTcount: A:0.14, C:0.22, G:0.32, T:0.32 Consensus pattern (43 bp): GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC Found at i:53146217 original size:128 final size:129 Alignment explanation
Indices: 53146056--53146323 Score: 475 Period size: 128 Copynumber: 2.1 Consensus size: 129 53146046 AAGAGCAGTC * 53146056 ATGCTGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGG 1 ATGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGG * * 53146121 CCTTCGTGCCTAGCAGGCTTTGTGCC-GTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT 66 CCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTA * 53146184 GTGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGG 1 ATGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGG * * 53146249 CCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGTCTTCGTGCTTAGCAGGCTTA 66 CCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTA 53146313 ATGCCGGTGAT 1 ATGCCGGTGAT 53146324 TCGAGCAAGG Statistics Matches: 132, Mismatches: 7, Indels: 1 0.94 0.05 0.01 Matches are distributed among these distances: 128 88 0.67 129 44 0.33 ACGTcount: A:0.14, C:0.22, G:0.32, T:0.32 Consensus pattern (129 bp): ATGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGG CCTTCGAGCCTAGCAGGCTTTGTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTA Found at i:53150133 original size:49 final size:47 Alignment explanation
Indices: 53150016--53150477 Score: 644 Period size: 47 Copynumber: 9.7 Consensus size: 47 53150006 GATTTTACGC * * 53150016 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT 1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT 53150063 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATGGCCAATGT 1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT * 53150110 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT 1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT * * 53150159 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT 1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT 53150208 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATGGCCAATGT 1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT * 53150255 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT 1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCAATGT * 53150304 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGT 1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCTAATGGCCA-ATGT * 53150353 GATGAATGTGAAGGTGTATATATGTGATAAGG-CTGAATAGCCAATGT 1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCT-AATGGCCAATGT * * * * * 53150400 GATGAATGTGAAGGTGTATATATGTGACAGGGCCGAGTGGCCAACGT 1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT * * * 53150447 GATGGATGTGAAAGTGTATAAATGTGATAAG 1 GATGAATGTGAAGGTGTATATATGTGATAAG 53150478 TCCCGAAGGG Statistics Matches: 381, Mismatches: 22, Indels: 24 0.89 0.05 0.06 Matches are distributed among these distances: 46 6 0.02 47 182 0.48 48 16 0.04 49 173 0.45 50 4 0.01 ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30 Consensus pattern (47 bp): GATGAATGTGAAGGTGTATATATGTGATAAGGCCTAATGGCCAATGT Found at i:53150140 original size:96 final size:95 Alignment explanation
Indices: 53150016--53150477 Score: 657 Period size: 96 Copynumber: 4.8 Consensus size: 95 53150006 GATTTTACGC 53150016 GATGAATGTGAA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT 1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT 53150080 ATATATGTGATAAGG-CTGAATGGCCAATGT 66 ATATATGTGATAAGGCCT-AATGGCCAATGT 53150110 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG 1 GATGAATGTG-AAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G * * 53150175 TATATATATGTGATAAGGCCTAATGGCCGATGT 63 TGTATATATGTGATAAGGCCTAATGGCCAATGT * 53150208 GATGAATGTGAAG-GTGTATATATGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAGTG 1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTG-AAG-G * 53150271 TGTATATATGTGATAAGGCCTAATGGCCGATGT 63 TGTATATATGTGATAAGGCCTAATGGCCAATGT * * 53150304 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG 1 GATGAATGTG-AAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG * 53150369 TATATATGTGATAAGG-CTGAATAGCCAATGT 65 TATATATGTGATAAGGCCT-AATGGCCAATGT * * * * * * * * 53150400 GATGAATGTGAAG-GTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT 1 GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT * 53150464 ATAAATGTGATAAG 66 ATATATGTGATAAG 53150478 TCCCGAAGGG Statistics Matches: 338, Mismatches: 20, Indels: 20 0.89 0.05 0.05 Matches are distributed among these distances: 94 64 0.19 95 9 0.03 96 172 0.51 97 12 0.04 98 77 0.23 99 4 0.01 ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30 Consensus pattern (95 bp): GATGAATGTGAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGT ATATATGTGATAAGGCCTAATGGCCAATGT Found at i:53150198 original size:145 final size:145 Alignment explanation
Indices: 53150016--53150477 Score: 792 Period size: 145 Copynumber: 3.2 Consensus size: 145 53150006 GATTTTACGC * 53150016 GATGAATGTG-AA-TGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG 1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG 53150079 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG 66 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG 53150144 CCTAATGGCCGATGT 131 CCTAATGGCCGATGT 53150159 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG 1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG 53150224 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG 66 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG 53150289 CCTAATGGCCGATGT 131 CCTAATGGCCGATGT * 53150304 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAGGTG 1 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG * * * 53150369 TATATATGTGATAAGGCTGAATAGCCAATGTGATGAATGTG-AAG-GTGTATATATGTGACAGGG 66 TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG * * * * 53150432 CCGAGTGGCCAACGT 131 CCTAATGGCCGATGT * 53150447 GATGGATGTGAAAGTGTATA-A-ATGTGATAAG 1 GATGAATGTGAAAGTGTATATATATGTGATAAG 53150478 TCCCGAAGGG Statistics Matches: 307, Mismatches: 10, Indels: 6 0.95 0.03 0.02 Matches are distributed among these distances: 141 10 0.03 142 1 0.00 143 57 0.19 144 5 0.02 145 234 0.76 ACGTcount: A:0.32, C:0.07, G:0.31, T:0.30 Consensus pattern (145 bp): GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG TATATATGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG CCTAATGGCCGATGT Found at i:53152156 original size:18 final size:18 Alignment explanation
Indices: 53152133--53152168 Score: 72 Period size: 18 Copynumber: 2.0 Consensus size: 18 53152123 ATAAACTTTC 53152133 TGTAACACCCTGAATTTG 1 TGTAACACCCTGAATTTG 53152151 TGTAACACCCTGAATTTG 1 TGTAACACCCTGAATTTG 53152169 GGCCTAGAAG Statistics Matches: 18, Mismatches: 0, Indels: 0 1.00 0.00 0.00 Matches are distributed among these distances: 18 18 1.00 ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33 Consensus pattern (18 bp): TGTAACACCCTGAATTTG Found at i:53153324 original size:27 final size:27 Alignment explanation
Indices: 53153145--53153368 Score: 204 Period size: 27 Copynumber: 8.3 Consensus size: 27 53153135 CTTTGTTTAC * 53153145 AAAATTACCAAAATACCCT-GCTTTGT 1 AAAATTACCAAAATACCCTCGATTTGT * * * * 53153171 AAAATTACTAAAATACCCTTGGTTTAT 1 AAAATTACCAAAATACCCTCGATTTGT * 53153198 AAAATTACCAAAATACCC-CTAGTTTGT 1 AAAATTACCAAAATACCCTCGA-TTTGT * * 53153225 AAAATTATCAAAATACCC-CTAGTTTGT 1 AAAATTACCAAAATACCCTCGA-TTTGT * 53153252 AAAATTACCAAAATACCC-CTAATTTGT 1 AAAATTACCAAAATACCCTC-GATTTGT * ** * 53153279 GAAATTACTGAAATACCCTCGACTTGT 1 AAAATTACCAAAATACCCTCGATTTGT * * 53153306 AAAATTACCAAAGTACCCTCGATTTAT 1 AAAATTACCAAAATACCCTCGATTTGT * * **** 53153333 AGAATTATCGTTTTACCCTCGATTTGT 1 AAAATTACCAAAATACCCTCGATTTGT 53153360 AAAATTACC 1 AAAATTACC 53153369 GTTTTACCCT Statistics Matches: 163, Mismatches: 31, Indels: 7 0.81 0.15 0.03 Matches are distributed among these distances: 26 18 0.11 27 143 0.88 28 2 0.01 ACGTcount: A:0.38, C:0.21, G:0.08, T:0.33 Consensus pattern (27 bp): AAAATTACCAAAATACCCTCGATTTGT Found at i:53153532 original size:80 final size:80 Alignment explanation
Indices: 53153319--53153716 Score: 512 Period size: 80 Copynumber: 4.9 Consensus size: 80 53153309 ATTACCAAAG * ** * * 53153319 TACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATT 1 TACCC-CGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATT * * 53153384 TACAGAATTACCGTTT 65 TACAAAATTACCATTT ** * * * ** 53153400 TACCCTTAGTTTACAGAATTA-CTATTTTACCCTCGATTTATAGAATTACCGTTTGACCCTTAAT 1 TACCCCGA-TTTACAGAATTATC-GTTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGAT * * 53153464 TTACATAATTACCGTTT 64 TTACAAAATTACCATTT * 53153481 TACCCCGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTT 1 TACCCCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTT * 53153546 ACAGAATTACCATTT 66 ACAAAATTACCATTT * 53153561 TACCCCGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTT 1 TACCCCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTT 53153626 ACAAAATTACCATTT 66 ACAAAATTACCATTT * * * ** * 53153641 TACCCTCGATTTATAGAATTA-CTGTTTTACCCTTGATTTACAAAATTACTATTTTACCCTCGAT 1 TACCC-CGATTTACAGAATTATC-GTTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGAT 53153705 TTACAAAATTAC 64 TTACAAAATTAC 53153717 TAAAATACCC Statistics Matches: 284, Mismatches: 28, Indels: 10 0.88 0.09 0.03 Matches are distributed among these distances: 80 149 0.52 81 135 0.48 ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40 Consensus pattern (80 bp): TACCCCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACCGTTTCACCCTCGATTT ACAAAATTACCATTT Found at i:53153718 original size:27 final size:27 Alignment explanation
Indices: 53153319--53153716 Score: 505 Period size: 27 Copynumber: 14.8 Consensus size: 27 53153309 ATTACCAAAG * * 53153319 TACCCTCGATTTATAGAATTATCGTTT 1 TACCCTCGATTTACAGAATTACCGTTT ** * 53153346 TACCCTCGATTTGTAAAATTACCGTTT 1 TACCCTCGATTTACAGAATTACCGTTT 53153373 TACCCTCGATTTACAGAATTACCGTTT 1 TACCCTCGATTTACAGAATTACCGTTT * ** 53153400 TACCCT-TAGTTTACAGAATTACTATTT 1 TACCCTCGA-TTTACAGAATTACCGTTT * 53153427 TACCCTCGATTTATAGAATTACCGTTT 1 TACCCTCGATTTACAGAATTACCGTTT * ** * 53153454 GACCCTTAATTTACATAATTACCGTTT 1 TACCCTCGATTTACAGAATTACCGTTT * * 53153481 TACCC-CGATTTACATAATTATCGTTT 1 TACCCTCGATTTACAGAATTACCGTTT 53153507 TACCCTCGATTTACAGAATTACCGTTT 1 TACCCTCGATTTACAGAATTACCGTTT * * 53153534 CACCCTCGATTTACAGAATTACCATTT 1 TACCCTCGATTTACAGAATTACCGTTT * * 53153561 TACCC-CGATTTACATAATTATCGTTT 1 TACCCTCGATTTACAGAATTACCGTTT 53153587 TACCCTCGATTTACAGAATTACCGTTT 1 TACCCTCGATTTACAGAATTACCGTTT * * * 53153614 CACCCTCGATTTACAAAATTACCATTT 1 TACCCTCGATTTACAGAATTACCGTTT * * 53153641 TACCCTCGATTTATAGAATTACTGTTT 1 TACCCTCGATTTACAGAATTACCGTTT * * ** 53153668 TACCCTTGATTTACAAAATTACTATTT 1 TACCCTCGATTTACAGAATTACCGTTT * 53153695 TACCCTCGATTTACAAAATTAC 1 TACCCTCGATTTACAGAATTAC 53153717 TAAAATACCC Statistics Matches: 322, Mismatches: 45, Indels: 8 0.86 0.12 0.02 Matches are distributed among these distances: 26 47 0.15 27 274 0.85 28 1 0.00 ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40 Consensus pattern (27 bp): TACCCTCGATTTACAGAATTACCGTTT Found at i:53154985 original size:25 final size:25 Alignment explanation
Indices: 53154957--53155004 Score: 78 Period size: 25 Copynumber: 1.9 Consensus size: 25 53154947 TTATACCATG * * 53154957 AAAATGACCATTTTGCCCCTAGGTA 1 AAAATGACCATTATACCCCTAGGTA 53154982 AAAATGACCATTATACCCCTAGG 1 AAAATGACCATTATACCCCTAGG 53155005 GTTTATGTAT Statistics Matches: 21, Mismatches: 2, Indels: 0 0.91 0.09 0.00 Matches are distributed among these distances: 25 21 1.00 ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25 Consensus pattern (25 bp): AAAATGACCATTATACCCCTAGGTA Found at i:53155107 original size:20 final size:20 Alignment explanation
Indices: 53155047--53155107 Score: 104 Period size: 20 Copynumber: 3.0 Consensus size: 20 53155037 ATAAATATGG * 53155047 TATGTATGAGATGCACATGA 1 TATGTATGATATGCACATGA * 53155067 CATGTATGATATGCACATGA 1 TATGTATGATATGCACATGA 53155087 TATGTATGATATGCACATGA 1 TATGTATGATATGCACATGA 53155107 T 1 T 53155108 GTAATCATAA Statistics Matches: 38, Mismatches: 3, Indels: 0 0.93 0.07 0.00 Matches are distributed among these distances: 20 38 1.00 ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33 Consensus pattern (20 bp): TATGTATGATATGCACATGA Found at i:53155184 original size:24 final size:24 Alignment explanation
Indices: 53155157--53155279 Score: 203 Period size: 24 Copynumber: 5.2 Consensus size: 24 53155147 GAGGAAGTGA 53155157 AAAAGGGCTTATGCCCCAGTTATC 1 AAAAGGGCTTATGCCCCAGTTATC 53155181 AAAAGGGCTTATGCCCCAGTTATC 1 AAAAGGGCTTATGCCCCAGTTATC 53155205 AAAAGGGCTTATGCCCCAGTTAT- 1 AAAAGGGCTTATGCCCCAGTTATC * 53155228 AAAAGGGCTTATGCCCCAGTTATT 1 AAAAGGGCTTATGCCCCAGTTATC * * * 53155252 GAAAGGGCTTTTGCCCCAGTTATT 1 AAAAGGGCTTATGCCCCAGTTATC 53155276 AAAA 1 AAAA 53155280 AAGGCTAGGC Statistics Matches: 95, Mismatches: 3, Indels: 2 0.95 0.03 0.02 Matches are distributed among these distances: 23 23 0.24 24 72 0.76 ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27 Consensus pattern (24 bp): AAAAGGGCTTATGCCCCAGTTATC Found at i:53155250 original size:47 final size:47 Alignment explanation
Indices: 53155157--53155279 Score: 201 Period size: 47 Copynumber: 2.6 Consensus size: 47 53155147 GAGGAAGTGA 53155157 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC 1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC * 53155205 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT 1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC * * 53155252 GAAAGGGCTTTTGCCCCAGTTATTAAAA 1 AAAAGGGCTTATGCCCCAGTTA-TAAAA 53155280 AAGGCTAGGC Statistics Matches: 71, Mismatches: 3, Indels: 2 0.93 0.04 0.03 Matches are distributed among these distances: 47 43 0.61 48 28 0.39 ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27 Consensus pattern (47 bp): AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC Found at i:53155527 original size:31 final size:31 Alignment explanation
Indices: 53155491--53155554 Score: 92 Period size: 31 Copynumber: 2.1 Consensus size: 31 53155481 CGTTTACAGT * 53155491 AAAGGCTTCGGCCTAGTAATATGAAATATGA 1 AAAGGCTTCGGCCCAGTAATATGAAATATGA ** * 53155522 AAAGGCTTCGGCCCAGTGTTATGGAATATGA 1 AAAGGCTTCGGCCCAGTAATATGAAATATGA 53155553 AA 1 AA 53155555 CATGAAAAGG Statistics Matches: 29, Mismatches: 4, Indels: 0 0.88 0.12 0.00 Matches are distributed among these distances: 31 29 1.00 ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25 Consensus pattern (31 bp): AAAGGCTTCGGCCCAGTAATATGAAATATGA Found at i:53157146 original size:27 final size:27 Alignment explanation
Indices: 53157111--53157316 Score: 195 Period size: 27 Copynumber: 7.7 Consensus size: 27 53157101 TTAGTTTATC * * 53157111 AAATTACCAAAATACCCTCGATTAGCA 1 AAATTACCAAAATACCCTCGATTTGTA * * 53157138 AAATTACCAAAATACCC-CTGGTTTATA 1 AAATTACCAAAATACCCTC-GATTTGTA * 53157165 AAATTACCAAAATACCC-CTGGTTTGTA 1 AAATTACCAAAATACCCTC-GATTTGTA * 53157192 AAATTACCAAAATACCC-CTAATTTGTA 1 AAATTACCAAAATACCCTC-GATTTGTA * * * * 53157219 AAATTACTAAAATACCCCCTATTTGCA 1 AAATTACCAAAATACCCTCGATTTGTA * * ** * 53157246 AAATTATCGAAATACTTTCGATTTGCA 1 AAATTACCAAAATACCCTCGATTTGTA ** 53157273 AAATTACTGAAATACCC-CGATTTGTA 1 AAATTACCAAAATACCCTCGATTTGTA * 53157299 AAATTACTAAAATACCCT 1 AAATTACCAAAATACCCT 53157317 TGTAGGGTAG Statistics Matches: 153, Mismatches: 23, Indels: 6 0.84 0.13 0.03 Matches are distributed among these distances: 26 25 0.16 27 127 0.83 28 1 0.01 ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30 Consensus pattern (27 bp): AAATTACCAAAATACCCTCGATTTGTA Found at i:53157249 original size:81 final size:82 Alignment explanation
Indices: 53157111--53157315 Score: 222 Period size: 81 Copynumber: 2.5 Consensus size: 82 53157101 TTAGTTTATC * * * * * 53157111 AAATTACCAAAATA-CCCTCGATTAGCAAAATTACCAAAATA-CCCCTGGTTTATAAAATTACCA 1 AAATTACCAAAATACCCCT-GATTTGTAAAATTACTAAAATACCCCCTGATTTACAAAATTACCA * * 53157174 AAATACCC-CTGGTTTGTA 65 AAATACCCTC-GATTTGCA * * * * 53157192 AAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCCCT-ATTTGCAAAATTATCGA 1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCCCTGATTTACAAAATTACCAA ** 53157256 AATACTTTCGATTTGCA 66 AATACCCTCGATTTGCA ** 53157273 AAATTACTGAAATACCCC-GATTTGTAAAATTACTAAAATACCC 1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCC 53157316 TTGTAGGGTA Statistics Matches: 105, Mismatches: 16, Indels: 7 0.82 0.12 0.05 Matches are distributed among these distances: 80 24 0.23 81 71 0.68 82 10 0.10 ACGTcount: A:0.41, C:0.22, G:0.07, T:0.29 Consensus pattern (82 bp): AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCCCTGATTTACAAAATTACCAA AATACCCTCGATTTGCA Found at i:53157337 original size:27 final size:27 Alignment explanation
Indices: 53157274--53158274 Score: 1226 Period size: 27 Copynumber: 37.2 Consensus size: 27 53157264 CGATTTGCAA ** * 53157274 AATTACTGAAATACCCC-G-ATTTGTAA 1 AATTACTGAAATACCCCTGTA-GGGTAG * * 53157300 AATTACTAAAATACCCTTGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * * * 53157327 AAATACTAAAATACCCCTGTAAGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * * * 53157354 AATTACTAAAATACCCTTGTAGGTTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * * 53157381 AATTACCG-AATACCCTTGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * * 53157407 AATTACCGAAATACCCCTGTAAGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * * 53157434 AATTACTAAAATACCCATGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG ** * * 53157461 AATTACCAAAATACCCTTGTAAGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * * 53157488 AAATACCGAAATACCCCTGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * 53157515 AATTACTGAAATACCCTTGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * 53157542 AATTA-TCGAAATACCCCTGTAAGGTAG 1 AATTACT-GAAATACCCCTGTAGGGTAG * 53157569 AATTACTGAAATACCCTTGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * 53157596 AATTACTAAAATACCCCTGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * * 53157623 AAATACCGAAATACCCCTGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * * * 53157650 AATTACTGAAATACCCTTGTATGATAG 1 AATTACTGAAATACCCCTGTAGGGTAG * 53157677 AATTACCGAAATACCCCTGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG ** 53157704 AATTACCAAAATACCCCTGTCA-GGTAG 1 AATTACTGAAATACCCCTGT-AGGGTAG * * * 53157731 AATTA-TCGAAATACTCCTGTAAGGTAT 1 AATTACT-GAAATACCCCTGTAGGGTAG * * * * 53157758 AATTACTAAAATACCCCTATAAGGTAT 1 AATTACTGAAATACCCCTGTAGGGTAG * 53157785 AATTACCGAAATACCCCTGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * 53157812 AATTACTGAAATACCCCTGTAAGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * 53157839 AATTACTGAAATACCCCTGAAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * * ** 53157866 AATTATTGAAATATCTTTGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG 53157893 AATTACTGAAATACCCCTGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * * 53157920 AATTACTAAAATACCCTTGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * * 53157947 AAATACCGAAATA-CCCTGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * * * 53157973 AATTACTAAAATACCCTTGTAGGATAG 1 AATTACTGAAATACCCCTGTAGGGTAG * 53158000 AATTACCGAAATACCCCTGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * * * 53158027 AAATACCGAAATACACCTGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG 53158054 AATTACTGAAATACCCCTGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * * 53158081 AATTACTGAAACACCCTTGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * * 53158108 AAATACCGAAATA-CCCTGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * 53158134 AATTACTAAAATACCCCTGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * 53158161 AATTACTGAAATACCCCTGTAGGATAG 1 AATTACTGAAATACCCCTGTAGGGTAG * 53158188 AATTACTGAAATACCCTTGTAGGGTAG 1 AATTACTGAAATACCCCTGTAGGGTAG * * 53158215 AATTACTGAAATACCCCTATAGGGCAG 1 AATTACTGAAATACCCCTGTAGGGTAG * * * ** * * 53158242 TATTACCGAGATACCTTTGTGGGGTAA 1 AATTACTGAAATACCCCTGTAGGGTAG 53158269 AATTAC 1 AATTAC 53158275 CATTCTGTCC Statistics Matches: 843, Mismatches: 121, Indels: 21 0.86 0.12 0.02 Matches are distributed among these distances: 26 86 0.10 27 753 0.89 28 4 0.00 ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26 Consensus pattern (27 bp): AATTACTGAAATACCCCTGTAGGGTAG Found at i:53158696 original size:22 final size:22 Alignment explanation
Indices: 53158668--53158727 Score: 68 Period size: 22 Copynumber: 2.7 Consensus size: 22 53158658 TTATTTTGAT * 53158668 TATGGCTTTGTGCCAACCT-ACA 1 TATGGCTATGTGCCAACCTGA-A * * * 53158690 TATGGCTCTGTGTCAACCTGAT 1 TATGGCTATGTGCCAACCTGAA 53158712 TATGGCTATGTGCCAA 1 TATGGCTATGTGCCAA 53158728 ACGTATTTGC Statistics Matches: 32, Mismatches: 5, Indels: 2 0.82 0.13 0.05 Matches are distributed among these distances: 22 31 0.97 23 1 0.03 ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33 Consensus pattern (22 bp): TATGGCTATGTGCCAACCTGAA Found at i:53160197 original size:49 final size:49 Alignment explanation
Indices: 53160120--53160263 Score: 173 Period size: 51 Copynumber: 2.9 Consensus size: 49 53160110 GCCGAAGCTA * * * 53160120 TCTGGTACGCATAGTAGCTTGCAGTTAGTACTACACATGCGACCAACAG- 1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-ACAGT * * * * 53160169 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTT 1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCACAG--T * * 53160220 TCGGGTACACATAGTAGTCTGCACTTAGTACTACACATGCGACC 1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC 53160264 TCACAATAGA Statistics Matches: 79, Mismatches: 13, Indels: 4 0.82 0.14 0.04 Matches are distributed among these distances: 48 4 0.05 49 37 0.47 51 38 0.48 ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26 Consensus pattern (49 bp): TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCACAGT Found at i:53162405 original size:15 final size:14 Alignment explanation
Indices: 53162351--53162401 Score: 59 Period size: 15 Copynumber: 3.5 Consensus size: 14 53162341 ACAAGAAAAC 53162351 GAATAAAAAATCCA 1 GAATAAAAAATCCA * 53162365 -AGATAGAAAAACCCA 1 GA-ATA-AAAAATCCA 53162380 GAATAAAGAAATCCA 1 GAATAAA-AAATCCA 53162395 GAATAAA 1 GAATAAA 53162402 GAAACCCAAG Statistics Matches: 31, Mismatches: 2, Indels: 7 0.77 0.05 0.17 Matches are distributed among these distances: 13 1 0.03 14 5 0.16 15 24 0.77 16 1 0.03 ACGTcount: A:0.63, C:0.14, G:0.12, T:0.12 Consensus pattern (14 bp): GAATAAAAAATCCA Found at i:53165464 original size:49 final size:49 Alignment explanation
Indices: 53165395--53165535 Score: 176 Period size: 51 Copynumber: 2.8 Consensus size: 49 53165385 GAAGCTATCT * * 53165395 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAG-TCT 1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-ACAGTTCG ** * * * 53165444 GGTACATGTAGTAGCCTGCACTTACTACTACACACGTGATCACAGTTTTCG 1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCACAG--TTCG * 53165495 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC 1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC 53165536 TCACAATAGA Statistics Matches: 76, Mismatches: 13, Indels: 4 0.82 0.14 0.04 Matches are distributed among these distances: 48 4 0.05 49 35 0.46 51 37 0.49 ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26 Consensus pattern (49 bp): GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCACAGTTCG Found at i:53165516 original size:51 final size:49 Alignment explanation
Indices: 53165395--53165528 Score: 171 Period size: 49 Copynumber: 2.7 Consensus size: 49 53165385 GAAGCTATCT * * * 53165395 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCT 1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCG ** * * 53165444 GGTACATGTAGTAGCCTGCACTTACTACTACACACGTGATC-ACAGTTTTCG 1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCG 53165495 GGTACACATAGTAGCCTGCACTTAGTACTACACA 1 GGTACACATAGTAGCCTGCACTTAGTACTACACA 53165529 TGCGACCTCA Statistics Matches: 72, Mismatches: 10, Indels: 4 0.84 0.12 0.05 Matches are distributed among these distances: 48 4 0.06 49 35 0.49 51 33 0.46 ACGTcount: A:0.28, C:0.26, G:0.19, T:0.26 Consensus pattern (49 bp): GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCG Found at i:53167164 original size:27 final size:27 Alignment explanation
Indices: 53167126--53167232 Score: 110 Period size: 27 Copynumber: 4.0 Consensus size: 27 53167116 TTCTGTTAAA * * 53167126 TGGCTTTGCCACATTATCTGTTTCTGG 1 TGGCTATGCCACAATATCTGTTTCTGG * 53167153 TGGTTATGCCACAAATATCTG-TTCTGG 1 TGGCTATGCCAC-AATATCTGTTTCTGG * * 53167180 TGGCTCTGCCACAATATCTGTATCTGG 1 TGGCTATGCCACAATATCTGTTTCTGG * * * * 53167207 TGACTTTGTCACAATATATG-TTCTGG 1 TGGCTATGCCACAATATCTGTTTCTGG 53167233 CATCCATGAG Statistics Matches: 67, Mismatches: 11, Indels: 5 0.81 0.13 0.06 Matches are distributed among these distances: 26 13 0.19 27 47 0.70 28 7 0.10 ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39 Consensus pattern (27 bp): TGGCTATGCCACAATATCTGTTTCTGG Found at i:53167220 original size:54 final size:53 Alignment explanation
Indices: 53167126--53167232 Score: 135 Period size: 54 Copynumber: 2.0 Consensus size: 53 53167116 TTCTGTTAAA * * * * * 53167126 TGGCTTTGCCACATTATCTGTTTCTGGTGGTTATGCCACAAATATCTGTTCTGG 1 TGGCTCTGCCACAATATCTGTATCTGGTGCTTATGCCAC-AATATATGTTCTGG * 53167180 TGGCTCTGCCACAATATCTGTATCTGGTGACTT-TGTCACAATATATGTTCTGG 1 TGGCTCTGCCACAATATCTGTATCTGGTG-CTTATGCCACAATATATGTTCTGG 53167233 CATCCATGAG Statistics Matches: 46, Mismatches: 6, Indels: 3 0.84 0.11 0.05 Matches are distributed among these distances: 53 13 0.28 54 31 0.67 55 2 0.04 ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39 Consensus pattern (53 bp): TGGCTCTGCCACAATATCTGTATCTGGTGCTTATGCCACAATATATGTTCTGG Found at i:53167407 original size:31 final size:31 Alignment explanation
Indices: 53167372--53167460 Score: 81 Period size: 37 Copynumber: 2.7 Consensus size: 31 53167362 ATTCTGTTAC 53167372 CTGATATTGATTCTGATTTTGTCACCTAATT 1 CTGATATTGATTCTGATTTTGTCACCTAATT * * 53167403 CTGATTATGATTTTGATTCTGATTCTGTCACCTGATT 1 CTG---AT-A--TTGATTCTGATTTTGTCACCTAATT * 53167440 CTGAT-TCTGATTCTCATTTTG 1 CTGATAT-TGATTCTGATTTTG 53167461 ATTCCAATTC Statistics Matches: 47, Mismatches: 4, Indels: 14 0.72 0.06 0.22 Matches are distributed among these distances: 30 1 0.02 31 15 0.32 34 4 0.09 35 1 0.02 37 26 0.55 ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49 Consensus pattern (31 bp): CTGATATTGATTCTGATTTTGTCACCTAATT Found at i:53167420 original size:37 final size:37 Alignment explanation
Indices: 53167373--53167451 Score: 122 Period size: 37 Copynumber: 2.1 Consensus size: 37 53167363 TTCTGTTACC * * 53167373 TGATATTGATTCTGATTTTGTCACCTAATTCTGATTA 1 TGATTTTGATTCTGATTCTGTCACCTAATTCTGATTA * * 53167410 TGATTTTGATTCTGATTCTGTCACCTGATTCTGATTC 1 TGATTTTGATTCTGATTCTGTCACCTAATTCTGATTA 53167447 TGATT 1 TGATT 53167452 CTCATTTTGA Statistics Matches: 38, Mismatches: 4, Indels: 0 0.90 0.10 0.00 Matches are distributed among these distances: 37 38 1.00 ACGTcount: A:0.20, C:0.15, G:0.15, T:0.49 Consensus pattern (37 bp): TGATTTTGATTCTGATTCTGTCACCTAATTCTGATTA Found at i:53167427 original size:6 final size:6 Alignment explanation
Indices: 53167400--53167474 Score: 62 Period size: 6 Copynumber: 12.3 Consensus size: 6 53167390 TTGTCACCTA * * * 53167400 ATTCTG ATTATG ATTTTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG 1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG * * ** 53167449 ATTCTC ATTTTG ATTCCA ATTCTG AT 1 ATTCTG ATTCTG ATTCTG ATTCTG AT 53167475 AATGTTTCTT Statistics Matches: 53, Mismatches: 13, Indels: 6 0.74 0.18 0.08 Matches are distributed among these distances: 5 1 0.02 6 48 0.91 7 3 0.06 8 1 0.02 ACGTcount: A:0.20, C:0.17, G:0.13, T:0.49 Consensus pattern (6 bp): ATTCTG Found at i:53167463 original size:37 final size:37 Alignment explanation
Indices: 53167381--53167464 Score: 114 Period size: 37 Copynumber: 2.3 Consensus size: 37 53167371 CCTGATATTG * * * 53167381 ATTCTGATTTTGTCACCTAATTCTGATTATGATTTTG 1 ATTCTGATTCTGTCACCTAATTCTGATTATGATTCTC * * 53167418 ATTCTGATTCTGTCACCTGATTCTGATTCTGATTCTC 1 ATTCTGATTCTGTCACCTAATTCTGATTATGATTCTC * 53167455 ATTTTGATTC 1 ATTCTGATTC 53167465 CAATTCTGAT Statistics Matches: 41, Mismatches: 6, Indels: 0 0.87 0.13 0.00 Matches are distributed among these distances: 37 41 1.00 ACGTcount: A:0.19, C:0.18, G:0.13, T:0.50 Consensus pattern (37 bp): ATTCTGATTCTGTCACCTAATTCTGATTATGATTCTC Found at i:53169504 original size:26 final size:26 Alignment explanation
Indices: 53169431--53169520 Score: 110 Period size: 27 Copynumber: 3.3 Consensus size: 26 53169421 TTTAGTTTAC * 53169431 TAAAATTACCGAAATACGCTT-AGTTTG 1 TAAAATTACTGAAATAC-CTTGA-TTTG * 53169458 TAAAAATACTGAAATACCCTTGATTTG 1 TAAAATTACTGAAATA-CCTTGATTTG * 53169485 TAAAATTACTGAAATACCTTCGACTTG 1 TAAAATTACTGAAATACCTT-GATTTG 53169512 TAAAATTAC 1 TAAAATTAC 53169521 CAAAGTACCC Statistics Matches: 56, Mismatches: 4, Indels: 6 0.85 0.06 0.09 Matches are distributed among these distances: 26 4 0.07 27 50 0.89 28 2 0.04 ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33 Consensus pattern (26 bp): TAAAATTACTGAAATACCTTGATTTG Found at i:53169537 original size:54 final size:54 Alignment explanation
Indices: 53169431--53169537 Score: 119 Period size: 54 Copynumber: 2.0 Consensus size: 54 53169421 TTTAGTTTAC * * ** 53169431 TAAAATTACCGAAATACGCTTAGTTTGTAAAAATACTGAAATACCCTTGATTTG 1 TAAAATTACCGAAATACGCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG * * * 53169485 TAAAATTACTGAAATAC-CTTCGACTTGTAAAATTAC-CAAAGTACCCCCGATTT 1 TAAAATTACCGAAATACGCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT 53169538 ACAGAATTAC Statistics Matches: 44, Mismatches: 7, Indels: 4 0.80 0.13 0.07 Matches are distributed among these distances: 53 7 0.16 54 37 0.84 ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32 Consensus pattern (54 bp): TAAAATTACCGAAATACGCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG Found at i:53169545 original size:27 final size:27 Alignment explanation
Indices: 53169515--53169576 Score: 88 Period size: 27 Copynumber: 2.3 Consensus size: 27 53169505 CGACTTGTAA 53169515 AATTACCAAAGTACCCCCGATTTACAG 1 AATTACCAAAGTACCCCCGATTTACAG *** * 53169542 AATTACCATTTTACCCCCGATTTACAT 1 AATTACCAAAGTACCCCCGATTTACAG 53169569 AATTACCA 1 AATTACCA 53169577 TTTTACCCCT Statistics Matches: 31, Mismatches: 4, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 27 31 1.00 ACGTcount: A:0.35, C:0.29, G:0.06, T:0.29 Consensus pattern (27 bp): AATTACCAAAGTACCCCCGATTTACAG Found at i:53169577 original size:27 final size:27 Alignment explanation
Indices: 53169526--53169720 Score: 120 Period size: 27 Copynumber: 6.8 Consensus size: 27 53169516 ATTACCAAAG 53169526 TACCCCCGATTTACAGAATTACCATTT 1 TACCCCCGATTTACAGAATTACCATTT * 53169553 TACCCCCGATTTACATAATTACCATTT 1 TACCCCCGATTTACAGAATTACCATTT * * * 53169580 TACCCCTGTTTTACCCTCGACTTACAGAATTACCATTT 1 TACCCCCG-ATT----T--AC--AG--AATTACCATTT ** * * 53169618 TACCCTTGATTTACAGAATTATCGTTT 1 TACCCCCGATTTACAGAATTACCATTT * ** * ** 53169645 TATCGTCGATTTATAGAATTACTGTTT 1 TACCCCCGATTTACAGAATTACCATTT ** * 53169672 TACCCTTGATTTACAGAATTACTATTT 1 TACCCCCGATTTACAGAATTACCATTT * * 53169699 TACCCTCGATTTACAAAATTAC 1 TACCCCCGATTTACAGAATTAC 53169721 TAAAATACCC Statistics Matches: 135, Mismatches: 22, Indels: 22 0.75 0.12 0.12 Matches are distributed among these distances: 27 105 0.78 28 2 0.01 29 1 0.01 31 2 0.01 32 1 0.01 33 1 0.01 34 2 0.01 36 1 0.01 37 2 0.01 38 18 0.13 ACGTcount: A:0.28, C:0.24, G:0.08, T:0.39 Consensus pattern (27 bp): TACCCCCGATTTACAGAATTACCATTT Found at i:53169584 original size:54 final size:54 Alignment explanation
Indices: 53169526--53169720 Score: 156 Period size: 54 Copynumber: 3.4 Consensus size: 54 53169516 ATTACCAAAG ** * 53169526 TACCCCCGATTTACAGAATTACCATTTTACCCCCGATTTACATAATTACCATTT 1 TACCCCCGATTTACAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTT * * * 53169580 TACCCCTGTTTTACCCTCGACTTACAGAATTACCATTTTACCCTTGATTTACAGAATTATCGTTT 1 TA---C-------CCC-CGATTTACAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTT * ** * ** * 53169645 TATCGTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTATTT 1 TACCCCCGATTTACAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTT * * 53169699 TACCCTCGATTTACAAAATTAC 1 TACCCCCGATTTACAGAATTAC 53169721 TAAAATACCC Statistics Matches: 110, Mismatches: 20, Indels: 22 0.72 0.13 0.14 Matches are distributed among these distances: 54 61 0.55 55 1 0.01 57 1 0.01 64 3 0.03 65 44 0.40 ACGTcount: A:0.28, C:0.24, G:0.08, T:0.39 Consensus pattern (54 bp): TACCCCCGATTTACAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTT Found at i:53169592 original size:38 final size:38 Alignment explanation
Indices: 53169550--53169631 Score: 119 Period size: 38 Copynumber: 2.2 Consensus size: 38 53169540 AGAATTACCA * * 53169550 TTTTACCCCCGATTTACATAATTACCATTTTACCCCTG 1 TTTTACCCCCGACTTACAGAATTACCATTTTACCCCTG * * 53169588 TTTTACCCTCGACTTACAGAATTACCATTTTACCCTTG 1 TTTTACCCCCGACTTACAGAATTACCATTTTACCCCTG * 53169626 ATTTAC 1 TTTTAC 53169632 AGAATTATCG Statistics Matches: 39, Mismatches: 5, Indels: 0 0.89 0.11 0.00 Matches are distributed among these distances: 38 39 1.00 ACGTcount: A:0.24, C:0.29, G:0.06, T:0.40 Consensus pattern (38 bp): TTTTACCCCCGACTTACAGAATTACCATTTTACCCCTG Found at i:53169721 original size:27 final size:27 Alignment explanation
Indices: 53169588--53169722 Score: 164 Period size: 27 Copynumber: 5.0 Consensus size: 27 53169578 TTTACCCCTG * * 53169588 TTTTACCCTCGACTTACAGAATTACCA 1 TTTTACCCTCGATTTACAGAATTACTA * * 53169615 TTTTACCCTTGATTTACAGAATTA-TCG 1 TTTTACCCTCGATTTACAGAATTACT-A * * * * 53169642 TTTTATCGTCGATTTATAGAATTACTG 1 TTTTACCCTCGATTTACAGAATTACTA * 53169669 TTTTACCCTTGATTTACAGAATTACTA 1 TTTTACCCTCGATTTACAGAATTACTA * 53169696 TTTTACCCTCGATTTACAAAATTACTA 1 TTTTACCCTCGATTTACAGAATTACTA 53169723 AAATACCCTT Statistics Matches: 91, Mismatches: 15, Indels: 4 0.83 0.14 0.04 Matches are distributed among these distances: 27 90 0.99 28 1 0.01 ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42 Consensus pattern (27 bp): TTTTACCCTCGATTTACAGAATTACTA Found at i:53169729 original size:27 final size:27 Alignment explanation
Indices: 53169672--53169866 Score: 117 Period size: 27 Copynumber: 7.2 Consensus size: 27 53169662 ATTACTGTTT * * * *** 53169672 TACCCTTGATTTACAGAATTACTATTT 1 TACCCTCGATTTACAAAATTACCAAAA * 53169699 TACCCTCGATTTACAAAATTACTAAAA 1 TACCCTCGATTTACAAAATTACCAAAA * ** 53169726 TACCCT-TAGTTTGTAAAATTACCAAAA 1 TACCCTCGA-TTTACAAAATTACCAAAA * ** * 53169753 TACCC-CTAGTTTGTAAAATCACCAAAA 1 TACCCTCGA-TTTACAAAATTACCAAAA * * *** * 53169780 TACCCTTGGTTTGTGAAATTACCGAAA 1 TACCCTCGATTTACAAAATTACCAAAA * ** 53169807 TACCCTCAATTTGTAAAATTACCAAAA 1 TACCCTCGATTTACAAAATTACCAAAA * * 53169834 TACCC-CTGATTTACAAAGTTACAAAAA 1 TACCCTC-GATTTACAAAATTACCAAAA 53169861 TACCCT 1 TACCCT 53169867 TGACTTTCTA Statistics Matches: 137, Mismatches: 26, Indels: 9 0.80 0.15 0.05 Matches are distributed among these distances: 26 2 0.01 27 135 0.99 ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32 Consensus pattern (27 bp): TACCCTCGATTTACAAAATTACCAAAA Done.